NIH Director's Pioneer Award
NIH Director's Pioneer Award
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The search results on this publication page are automated on a monthly schedule based on acknowledgement of NIH Common Fund award numbers and intramural awards. Therefore, this list is not an exhaustive or error-free account of the program’s publications.
| Title | Author | Journal Name | PubMedID | Journal Abbreviation | Publication Date | PubMedLink |
|---|---|---|---|---|---|---|
| Metabolic plasticity drives development during mammalian embryogenesis. | Sharpley MS, Chi F, Hoeve JT, Banerjee U | Developmental cell | 34428399 | Dev Cell | 2021 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/34428399 |
| Glycolysis-Independent Glucose Metabolism Distinguishes TE from ICM Fate during Mammalian Embryogenesis. | Chi F, Sharpley MS, Nagaraj R, Roy SS, Banerjee U | Developmental cell | 32197068 | Dev Cell | 2020 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/32197068 |
| Reversible switching between epigenetic states in honeybee behavioral subcastes. | Herb BR, Wolschin F, Hansen KD, Aryee MJ, Langmead B, Irizarry R, Amdam GV, Feinberg AP | Nature neuroscience | 22983211 | Nat Neurosci | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22983211 |
| Regulated noise in the epigenetic landscape of development and disease. | Pujadas E, Feinberg AP | Cell | 22424224 | Cell | 2012 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/22424224 |
| Minimal requirements for inhibition of MraY by lysis protein E from bacteriophage ΦX174. | Tanaka S, Clemons WM Jr | Molecular microbiology | 22742425 | Mol Microbiol | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22742425 |
| The glove-like structure of the conserved membrane protein TatC provides insight into signal sequence recognition in twin-arginine translocation. | Ramasamy S, Abrol R, Suloway CJ, Clemons WM Jr | Structure (London, England : 1993) | 23583035 | Structure | 2013 May 7 | https://www.ncbi.nlm.nih.gov/pubmed/23583035 |
| The evolution of bacterial mechanosensitive channels. | Booth IR, Miller S, Müller A, Lehtovirta-Morley L | Cell calcium | 25591932 | Cell Calcium | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25591932 |
| Waking State: Rapid Variations Modulate Neural and Behavioral Responses. | McGinley MJ, Vinck M, Reimer J, Batista-Brito R, Zagha E, Cadwell CR, Tolias AS, Cardin JA, McCormick DA | Neuron | 26402600 | Neuron | 2015 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/26402600 |
| Principles of connectivity among morphologically defined cell types in adult neocortex. | Jiang X, Shen S, Cadwell CR, Berens P, Sinz F, Ecker AS, Patel S, Tolias AS | Science (New York, N.Y.) | 26612957 | Science | 2015 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/26612957 |
| Electrophysiological, transcriptomic and morphologic profiling of single neurons using Patch-seq. | Cadwell CR, Palasantza A, Jiang X, Berens P, Deng Q, Yilmaz M, Reimer J, Shen S, Bethge M, Tolias KF, Sandberg R, Tolias AS | Nature biotechnology | 26689543 | Nat Biotechnol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26689543 |
| Population code in mouse V1 facilitates readout of natural scenes through increased sparseness. | Froudarakis E, Berens P, Ecker AS, Cotton RJ, Sinz FH, Yatsenko D, Saggau P, Bethge M, Tolias AS | Nature neuroscience | 24747577 | Nat Neurosci | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24747577 |
| Attentional fluctuations induce shared variability in macaque primary visual cortex. | Denfield GH, Ecker AS, Shinn TJ, Bethge M, Tolias AS | Nature communications | 29985411 | Nat Commun | 2018 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/29985411 |
| Benchmarking Spike Rate Inference in Population Calcium Imaging. | Theis L, Berens P, Froudarakis E, Reimer J, Román Rosón M, Baden T, Euler T, Tolias AS, Bethge M | Neuron | 27151639 | Neuron | 2016 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/27151639 |
| Pupil fluctuations track rapid changes in adrenergic and cholinergic activity in cortex. | Reimer J, McGinley MJ, Liu Y, Rodenkirch C, Wang Q, McCormick DA, Tolias AS | Nature communications | 27824036 | Nat Commun | 2016 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/27824036 |
| Deep convolutional models improve predictions of macaque V1 responses to natural images. | Cadena SA, Denfield GH, Walker EY, Gatys LA, Tolias AS, Bethge M, Ecker AS | PLoS computational biology | 31013278 | PLoS Comput Biol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/31013278 |
| Pupil fluctuations track fast switching of cortical states during quiet wakefulness. | Reimer J, Froudarakis E, Cadwell CR, Yatsenko D, Denfield GH, Tolias AS | Neuron | 25374359 | Neuron | 2014 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/25374359 |
| On the Structure of Neuronal Population Activity under Fluctuations in Attentional State. | Ecker AS, Denfield GH, Bethge M, Tolias AS | The Journal of neuroscience : the official journal of the Society for Neuroscience | 26843656 | J Neurosci | 2016 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/26843656 |
| Multimodal profiling of single-cell morphology, electrophysiology, and gene expression using Patch-seq. | Cadwell CR, Scala F, Li S, Livrizzi G, Shen S, Sandberg R, Jiang X, Tolias AS | Nature protocols | 29189773 | Nat Protoc | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29189773 |
| Improved estimation and interpretation of correlations in neural circuits. | Yatsenko D, Josić K, Ecker AS, Froudarakis E, Cotton RJ, Tolias AS | PLoS computational biology | 25826696 | PLoS Comput Biol | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25826696 |
| Cell type composition and circuit organization of clonally related excitatory neurons in the juvenile mouse neocortex. | Cadwell CR, Scala F, Fahey PG, Kobak D, Mulherkar S, Sinz FH, Papadopoulos S, Tan ZH, Johnsson P, Hartmanis L, Li S, Cotton RJ, Tolias KF, Sandberg R, Berens P, Jiang X, Tolias AS | eLife | 32134385 | Elife | 2020 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/32134385 |
| Learning divisive normalization in primary visual cortex. | Burg MF, Cadena SA, Denfield GH, Walker EY, Tolias AS, Bethge M, Ecker AS | PLoS computational biology | 34097695 | PLoS Comput Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34097695 |
| The Assembly-Activating Protein Promotes Stability and Interactions between AAV's Viral Proteins to Nucleate Capsid Assembly. | Maurer AC, Pacouret S, Cepeda Diaz AK, Blake J, Andres-Mateos E, Vandenberghe LH | Cell reports | 29742436 | Cell Rep | 2018 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/29742436 |
| Promising and delivering gene therapies for vision loss. | Carvalho LS, Vandenberghe LH | Vision research | 25094052 | Vision Res | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25094052 |
| Adeno-associated virus: fit to serve. | Zinn E, Vandenberghe LH | Current opinion in virology | 25128609 | Curr Opin Virol | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25128609 |
| In vitro and in vivo rescue of aberrant splicing in CEP290-associated LCA by antisense oligonucleotide delivery. | Garanto A, Chung DC, Duijkers L, Corral-Serrano JC, Messchaert M, Xiao R, Bennett J, Vandenberghe LH, Collin RW | Human molecular genetics | 27106101 | Hum Mol Genet | 2016 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/27106101 |
| In Silico Reconstruction of the Viral Evolutionary Lineage Yields a Potent Gene Therapy Vector. | Zinn E, Pacouret S, Khaychuk V, Turunen HT, Carvalho LS, Andres-Mateos E, Shah S, Shelke R, Maurer AC, Plovie E, Xiao R, Vandenberghe LH | Cell reports | 26235624 | Cell Rep | 2015 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/26235624 |
| Basal exon skipping and genetic pleiotropy: A predictive model of disease pathogenesis. | Drivas TG, Wojno AP, Tucker BA, Stone EM, Bennett J | Science translational medicine | 26062849 | Sci Transl Med | 2015 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/26062849 |
| AAV9 targets cone photoreceptors in the nonhuman primate retina. | Vandenberghe LH, Bell P, Maguire AM, Xiao R, Hopkins TB, Grant R, Bennett J, Wilson JM | PloS one | 23382846 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23382846 |
| Retinal gene therapy coming of age. | Cepko CL, Vandenberghe LH | Human gene therapy | 23458444 | Hum Gene Ther | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23458444 |
| A synthetic AAV vector enables safe and efficient gene transfer to the mammalian inner ear. | Landegger LD, Pan B, Askew C, Wassmer SJ, Gluck SD, Galvin A, Taylor R, Forge A, Stankovic KM, Holt JR, Vandenberghe LH | Nature biotechnology | 28165475 | Nat Biotechnol | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28165475 |
| Perspectives on best practices for gene therapy programs. | Cheever TR, Berkley D, Braun S, Brown RH, Byrne BJ, Chamberlain JS, Cwik V, Duan D, Federoff HJ, High KA, Kaspar BK, Klinger KW, Larkindale J, Lincecum J, Mavilio F, McDonald CL, McLaughlin J, Weiss McLeod B, Mendell JR, Nuckolls G, Stedman HH, Tagle DA, Vandenberghe LH, Wang H, Wernett PJ, Wilson JM, Porter JD, Gubitz AK | Human gene therapy | 25654329 | Hum Gene Ther | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25654329 |
| Controlling AAV Tropism in the Nervous System with Natural and Engineered Capsids. | Castle MJ, Turunen HT, Vandenberghe LH, Wolfe JH | Methods in molecular biology (Clifton, N.J.) | 26611584 | Methods Mol Biol | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26611584 |
| Efficient transduction and optogenetic stimulation of retinal bipolar cells by a synthetic adeno-associated virus capsid and promoter. | Cronin T, Vandenberghe LH, Hantz P, Juttner J, Reimann A, Kacsó AE, Huckfeldt RM, Busskamp V, Kohler H, Lagali PS, Roska B, Bennett J | EMBO molecular medicine | 25092770 | EMBO Mol Med | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25092770 |
| Gene delivery to the retina: from mouse to man. | Bennett J, Chung DC, Maguire A | Methods in enzymology | 22365778 | Methods Enzymol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22365778 |
| What Is Next for Retinal Gene Therapy? | Vandenberghe LH | Cold Spring Harbor perspectives in medicine | 25877395 | Cold Spring Harb Perspect Med | 2015 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/25877395 |
| Restoration of Vision and Retinal Responses After Adeno-Associated Virus-Mediated Optogenetic Therapy in Blind Dogs. | Nikonov S, Aravand P, Lyubarsky A, Nikonov R, Luo AJ, Wei Z, Maguire AM, Phelps NT, Shpylchak I, Willett K, Aleman TS, Huckfeldt RM, Ramachandran PS, Bennett J | Translational vision science & technology | 35604672 | Transl Vis Sci Technol | 2022 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/35604672 |
| Model-based spike sorting with a mixture of drifting t-distributions. | Shan KQ, Lubenov EV, Siapas AG | Journal of neuroscience methods | 28652008 | J Neurosci Methods | 2017 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/28652008 |
| Spatial tuning and brain state account for dorsal hippocampal CA1 activity in a non-spatial learning task. | Shan KQ, Lubenov EV, Papadopoulou M, Siapas AG | eLife | 27487561 | Elife | 2016 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/27487561 |
| Structured Variability in Purkinje Cell Activity during Locomotion. | Sauerbrei BA, Lubenov EV, Siapas AG | Neuron | 26291165 | Neuron | 2015 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/26291165 |
| Nanofabricated Neural Probes for Dense 3-D Recordings of Brain Activity. | Rios G, Lubenov EV, Chi D, Roukes ML, Siapas AG | Nano letters | 27766885 | Nano Lett | 2016 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/27766885 |
| Membrane Potential Dynamics of CA1 Pyramidal Neurons during Hippocampal Ripples in Awake Mice. | Hulse BK, Moreaux LC, Lubenov EV, Siapas AG | Neuron | 26889811 | Neuron | 2016 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/26889811 |
| Brain State Dependence of Hippocampal Subthreshold Activity in Awake Mice. | Hulse BK, Lubenov EV, Siapas AG | Cell reports | 28052244 | Cell Rep | 2017 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/28052244 |
| Endogenous Retroviral Envelope Syncytin Induces HIV-1 Spreading and Establishes HIV Reservoirs in Placenta. | Tang Y, Woodward BO, Pastor L, George AM, Petrechko O, Nouvet FJ, Haas DW, Jiang G, Hildreth JEK | Cell reports | 32234485 | Cell Rep | 2020 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/32234485 |
| Bipolar cell-photoreceptor connectivity in the zebrafish (Danio rerio) retina. | Li YN, Tsujimura T, Kawamura S, Dowling JE | The Journal of comparative neurology | 22907678 | J Comp Neurol | 2012 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/22907678 |
| Large-scale imaging in small brains. | Ahrens MB, Engert F | Current opinion in neurobiology | 25636154 | Curr Opin Neurobiol | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25636154 |
| Navigational strategies underlying phototaxis in larval zebrafish. | Chen X, Engert F | Frontiers in systems neuroscience | 24723859 | Front Syst Neurosci | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24723859 |
| Spinal projection neurons control turning behaviors in zebrafish. | Huang KH, Ahrens MB, Dunn TW, Engert F | Current biology : CB | 23910662 | Curr Biol | 2013 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/23910662 |
| Neural Circuits Underlying Visually Evoked Escapes in Larval Zebrafish. | Dunn TW, Gebhardt C, Naumann EA, Riegler C, Ahrens MB, Engert F, Del Bene F | Neuron | 26804997 | Neuron | 2016 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/26804997 |
| Pluripotency factors in embryonic stem cells regulate differentiation into germ layers. | Thomson M, Liu SJ, Zou LN, Smith Z, Meissner A, Ramanathan S | Cell | 21663792 | Cell | 2011 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/21663792 |
| A compressed sensing framework for efficient dissection of neural circuits. | Lee JB, Yonar A, Hallacy T, Shen CH, Milloz J, Srinivasan J, Kocabas A, Ramanathan S | Nature methods | 30573831 | Nat Methods | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30573831 |
| Identification of the long, edited dsRNAome of LPS-stimulated immune cells. | Blango MG, Bass BL | Genome research | 27197207 | Genome Res | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27197207 |
| Potential role for snoRNAs in PKR activation during metabolic stress. | Youssef OA, Safran SA, Nakamura T, Nix DA, Hotamisligil GS, Bass BL | Proceedings of the National Academy of Sciences of the United States of America | 25848059 | Proc Natl Acad Sci U S A | 2015 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/25848059 |
| Genome-wide profiling of the C. elegans dsRNAome. | Whipple JM, Youssef OA, Aruscavage PJ, Nix DA, Hong C, Johnson WE, Bass BL | RNA (New York, N.Y.) | 25805852 | RNA | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25805852 |
| Drosophila dicer-2 cleavage is mediated by helicase- and dsRNA termini-dependent states that are modulated by Loquacious-PD. | Sinha NK, Trettin KD, Aruscavage PJ, Bass BL | Molecular cell | 25891075 | Mol Cell | 2015 May 7 | https://www.ncbi.nlm.nih.gov/pubmed/25891075 |
| Genome-wide identification and quantitative analysis of cleaved tRNA fragments induced by cellular stress. | Saikia M, Krokowski D, Guan BJ, Ivanov P, Parisien M, Hu GF, Anderson P, Pan T, Hatzoglou M | The Journal of biological chemistry | 23086926 | J Biol Chem | 2012 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/23086926 |
| How the fly balances its ability to combat different pathogens. | Chambers MC, Lightfield KL, Schneider DS | PLoS pathogens | 23271964 | PLoS Pathog | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23271964 |
| Tracing personalized health curves during infections. | Schneider DS | PLoS biology | 21957398 | PLoS Biol | 2011 Sep | https://www.ncbi.nlm.nih.gov/pubmed/21957398 |
| Disease tolerance as a defense strategy. | Medzhitov R, Schneider DS, Soares MP | Science (New York, N.Y.) | 22363001 | Science | 2012 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/22363001 |
| Tolerance of infections. | Ayres JS, Schneider DS | Annual review of immunology | 22224770 | Annu Rev Immunol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22224770 |
| Guided Homing of Cells in Multi-Photon Microfabricated Bioscaffolds. | Skylar-Scott MA, Liu MC, Wu Y, Dixit A, Yanik MF | Advanced healthcare materials | 27059425 | Adv Healthc Mater | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27059425 |
| Electrophysiological properties of basal forebrain cholinergic neurons identified by genetic and optogenetic tagging. | López-Hernández GY, Ananth M, Jiang L, Ballinger EC, Talmage DA, Role LW | Journal of neurochemistry | 28791701 | J Neurochem | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28791701 |
| Cholinergic Signaling Controls Conditioned Fear Behaviors and Enhances Plasticity of Cortical-Amygdala Circuits. | Jiang L, Kundu S, Lederman JD, López-Hernández GY, Ballinger EC, Wang S, Talmage DA, Role LW | Neuron | 27161525 | Neuron | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/27161525 |
| Targeted gene knockout by direct delivery of zinc-finger nuclease proteins. | Gaj T, Guo J, Kato Y, Sirk SJ, Barbas CF 3rd | Nature methods | 22751204 | Nat Methods | 2012 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/22751204 |
| Structural basis for germ-line gene usage of a potent class of antibodies targeting the CD4-binding site of HIV-1 gp120. | West AP Jr, Diskin R, Nussenzweig MC, Bjorkman PJ | Proceedings of the National Academy of Sciences of the United States of America | 22745174 | Proc Natl Acad Sci U S A | 2012 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/22745174 |
| Design and characterization of structured protein linkers with differing flexibilities. | Klein JS, Jiang S, Galimidi RP, Keeffe JR, Bjorkman PJ | Protein engineering, design & selection : PEDS | 25301959 | Protein Eng Des Sel | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25301959 |
| Structural insights on the role of antibodies in HIV-1 vaccine and therapy. | West AP Jr, Scharf L, Scheid JF, Klein F, Bjorkman PJ, Nussenzweig MC | Cell | 24529371 | Cell | 2014 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/24529371 |
| Computational analysis of anti-HIV-1 antibody neutralization panel data to identify potential functional epitope residues. | West AP Jr, Scharf L, Horwitz J, Klein F, Nussenzweig MC, Bjorkman PJ | Proceedings of the National Academy of Sciences of the United States of America | 23754383 | Proc Natl Acad Sci U S A | 2013 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/23754383 |
| Structural characterization of anti-inflammatory immunoglobulin G Fc proteins. | Ahmed AA, Giddens J, Pincetic A, Lomino JV, Ravetch JV, Wang LX, Bjorkman PJ | Journal of molecular biology | 25036289 | J Mol Biol | 2014 Sep 9 | https://www.ncbi.nlm.nih.gov/pubmed/25036289 |
| Intra-spike crosslinking overcomes antibody evasion by HIV-1. | Galimidi RP, Klein JS, Politzer MS, Bai S, Seaman MS, Nussenzweig MC, West AP Jr, Bjorkman PJ | Cell | 25635457 | Cell | 2015 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/25635457 |
| Antibody engineering for increased potency, breadth and half-life. | Sievers SA, Scharf L, West AP Jr, Bjorkman PJ | Current opinion in HIV and AIDS | 25760931 | Curr Opin HIV AIDS | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25760931 |
| Discovery of potent myeloid cell leukemia 1 (Mcl-1) inhibitors using fragment-based methods and structure-based design. | Friberg A, Vigil D, Zhao B, Daniels RN, Burke JP, Garcia-Barrantes PM, Camper D, Chauder BA, Lee T, Olejniczak ET, Fesik SW | Journal of medicinal chemistry | 23244564 | J Med Chem | 2013 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/23244564 |
| Discovery of Quinazolines That Activate SOS1-Mediated Nucleotide Exchange on RAS. | Abbott JR, Patel PA, Howes JE, Akan DT, Kennedy JP, Burns MC, Browning CF, Sun Q, Rossanese OW, Phan J, Waterson AG, Fesik SW | ACS medicinal chemistry letters | 30258545 | ACS Med Chem Lett | 2018 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/30258545 |
| MYC and MCL1 Cooperatively Promote Chemotherapy-Resistant Breast Cancer Stem Cells via Regulation of Mitochondrial Oxidative Phosphorylation. | Lee KM, Giltnane JM, Balko JM, Schwarz LJ, Guerrero-Zotano AL, Hutchinson KE, Nixon MJ, Estrada MV, Sánchez V, Sanders ME, Lee T, Gómez H, Lluch A, Pérez-Fidalgo JA, Wolf MM, Andrejeva G, Rathmell JC, Fesik SW, Arteaga CL | Cell metabolism | 28978427 | Cell Metab | 2017 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/28978427 |
| Fragment-based screening of the bromodomain of ATAD2. | Harner MJ, Chauder BA, Phan J, Fesik SW | Journal of medicinal chemistry | 25314628 | J Med Chem | 2014 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/25314628 |
| Approach for targeting Ras with small molecules that activate SOS-mediated nucleotide exchange. | Burns MC, Sun Q, Daniels RN, Camper D, Kennedy JP, Phan J, Olejniczak ET, Lee T, Waterson AG, Rossanese OW, Fesik SW | Proceedings of the National Academy of Sciences of the United States of America | 24550516 | Proc Natl Acad Sci U S A | 2014 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/24550516 |
| A high-throughput fluorescence polarization anisotropy assay for the 70N domain of replication protein A. | Souza-Fagundes EM, Frank AO, Feldkamp MD, Dorset DC, Chazin WJ, Rossanese OW, Olejniczak ET, Fesik SW | Analytical biochemistry | 22197419 | Anal Biochem | 2012 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/22197419 |
| Discovery and biological characterization of potent myeloid cell leukemia-1 inhibitors. | Lee T, Bian Z, Zhao B, Hogdal LJ, Sensintaffar JL, Goodwin CM, Belmar J, Shaw S, Tarr JC, Veerasamy N, Matulis SM, Koss B, Fischer MA, Arnold AL, Camper DV, Browning CF, Rossanese OW, Budhraja A, Opferman J, Boise LH, Savona MR, Letai A, Olejniczak ET, Fesik SW | FEBS letters | 27878989 | FEBS Lett | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27878989 |
| Drugging the undruggable RAS: Mission possible? | Cox AD, Fesik SW, Kimmelman AC, Luo J, Der CJ | Nature reviews. Drug discovery | 25323927 | Nat Rev Drug Discov | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25323927 |
| Discovery of tricyclic indoles that potently inhibit Mcl-1 using fragment-based methods and structure-based design. | Burke JP, Bian Z, Shaw S, Zhao B, Goodwin CM, Belmar J, Browning CF, Vigil D, Friberg A, Camper DV, Rossanese OW, Lee T, Olejniczak ET, Fesik SW | Journal of medicinal chemistry | 25844895 | J Med Chem | 2015 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/25844895 |
| Discovery of small molecules that bind to K-Ras and inhibit Sos-mediated activation. | Sun Q, Burke JP, Phan J, Burns MC, Olejniczak ET, Waterson AG, Lee T, Rossanese OW, Fesik SW | Angewandte Chemie (International ed. in English) | 22566140 | Angew Chem Int Ed Engl | 2012 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/22566140 |
| Identification and Optimization of Anthranilic Acid Based Inhibitors of Replication Protein A. | Patrone JD, Pelz NF, Bates BS, Souza-Fagundes EM, Vangamudi B, Camper DV, Kuznetsov AG, Browning CF, Feldkamp MD, Frank AO, Gilston BA, Olejniczak ET, Rossanese OW, Waterson AG, Chazin WJ, Fesik SW | ChemMedChem | 26748787 | ChemMedChem | 2016 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/26748787 |
| Discovery of 2-Indole-acylsulfonamide Myeloid Cell Leukemia 1 (Mcl-1) Inhibitors Using Fragment-Based Methods. | Pelz NF, Bian Z, Zhao B, Shaw S, Tarr JC, Belmar J, Gregg C, Camper DV, Goodwin CM, Arnold AL, Sensintaffar JL, Friberg A, Rossanese OW, Lee T, Olejniczak ET, Fesik SW | Journal of medicinal chemistry | 26878343 | J Med Chem | 2016 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/26878343 |
| Fragment Optimization of Reversible Binding to the Switch II Pocket on KRAS Leads to a Potent, In Vivo Active KRAS(G12C) Inhibitor. | Bröker J, Waterson AG, Smethurst C, Kessler D, Böttcher J, Mayer M, Gmaschitz G, Phan J, Little A, Abbott JR, Sun Q, Gmachl M, Rudolph D, Arnhof H, Rumpel K, Savarese F, Gerstberger T, Mischerikow N, Treu M, Herdeis L, Wunberg T, Gollner A, Weinstabl H, Mantoulidis A, Krämer O, McConnell DB, W Fesik S | Journal of medicinal chemistry | 36300829 | J Med Chem | 2022 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/36300829 |
| A method for the second-site screening of K-Ras in the presence of a covalently attached first-site ligand. | Sun Q, Phan J, Friberg AR, Camper DV, Olejniczak ET, Fesik SW | Journal of biomolecular NMR | 25087006 | J Biomol NMR | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25087006 |
| Discovery of Protein-Protein Interaction Inhibitors of Replication Protein A. | Patrone JD, Kennedy JP, Frank AO, Feldkamp MD, Vangamudi B, Pelz NF, Rossanese OW, Waterson AG, Chazin WJ, Fesik SW | ACS medicinal chemistry letters | 23914285 | ACS Med Chem Lett | 2013 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/23914285 |
| Surface reengineering of RPA70N enables cocrystallization with an inhibitor of the replication protein A interaction motif of ATR interacting protein. | Feldkamp MD, Frank AO, Kennedy JP, Patrone JD, Vangamudi B, Waterson AG, Fesik SW, Chazin WJ | Biochemistry | 23962067 | Biochemistry | 2013 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/23962067 |
| Fragment-based drug discovery using NMR spectroscopy. | Harner MJ, Frank AO, Fesik SW | Journal of biomolecular NMR | 23686385 | J Biomol NMR | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23686385 |
| Discovery and Structure-Based Optimization of Benzimidazole-Derived Activators of SOS1-Mediated Nucleotide Exchange on RAS. | Hodges TR, Abbott JR, Little AJ, Sarkar D, Salovich JM, Howes JE, Akan DT, Sai J, Arnold AL, Browning C, Burns MC, Sobolik T, Sun Q, Beesetty Y, Coker JA, Scharn D, Stadtmueller H, Rossanese OW, Phan J, Waterson AG, McConnell DB, Fesik SW | Journal of medicinal chemistry | 30205005 | J Med Chem | 2018 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/30205005 |
| Discovery of a potent inhibitor of replication protein a protein-protein interactions using a fragment-linking approach. | Frank AO, Feldkamp MD, Kennedy JP, Waterson AG, Pelz NF, Patrone JD, Vangamudi B, Camper DV, Rossanese OW, Chazin WJ, Fesik SW | Journal of medicinal chemistry | 24147804 | J Med Chem | 2013 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/24147804 |
| Interaction with WDR5 promotes target gene recognition and tumorigenesis by MYC. | Thomas LR, Wang Q, Grieb BC, Phan J, Foshage AM, Sun Q, Olejniczak ET, Clark T, Dey S, Lorey S, Alicie B, Howard GC, Cawthon B, Ess KC, Eischen CM, Zhao Z, Fesik SW, Tansey WP | Molecular cell | 25818646 | Mol Cell | 2015 May 7 | https://www.ncbi.nlm.nih.gov/pubmed/25818646 |
| Discovery of Sulfonamide-Derived Agonists of SOS1-Mediated Nucleotide Exchange on RAS Using Fragment-Based Methods. | Sarkar D, Olejniczak ET, Phan J, Coker JA, Sai J, Arnold A, Beesetty Y, Waterson AG, Fesik SW | Journal of medicinal chemistry | 32673492 | J Med Chem | 2020 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/32673492 |
| Dynamic states of population activity in prefrontal cortical networks of freely-moving macaque. | Milton R, Shahidi N, Dragoi V | Nature communications | 32327660 | Nat Commun | 2020 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/32327660 |
| Nanoelectromechanical resonator arrays for ultrafast, gas-phase chromatographic chemical analysis. | Li M, Myers EB, Tang HX, Aldridge SJ, McCaig HC, Whiting JJ, Simonson RJ, Lewis NS, Roukes ML | Nano letters | 20795729 | Nano Lett | 2010 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/20795729 |
| Comparative advantages of mechanical biosensors. | Arlett JL, Myers EB, Roukes ML | Nature nanotechnology | 21441911 | Nat Nanotechnol | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21441911 |
| Surpassing fundamental limits of oscillators using nonlinear resonators. | Villanueva LG, Kenig E, Karabalin RB, Matheny MH, Lifshitz R, Cross MC, Roukes ML | Physical review letters | 23679770 | Phys Rev Lett | 2013 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/23679770 |
| Optimal operating points of oscillators using nonlinear resonators. | Kenig E, Cross MC, Villanueva LG, Karabalin RB, Matheny MH, Lifshitz R, Roukes ML | Physical review. E, Statistical, nonlinear, and soft matter physics | 23214857 | Phys Rev E Stat Nonlin Soft Matter Phys | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23214857 |
| Large-scale integration of nanoelectromechanical systems for gas sensing applications. | Bargatin I, Myers EB, Aldridge JS, Marcoux C, Brianceau P, Duraffourg L, Colinet E, Hentz S, Andreucci P, Roukes ML | Nano letters | 22280452 | Nano Lett | 2012 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/22280452 |
| Stress-induced variations in the stiffness of micro- and nanocantilever beams. | Karabalin RB, Villanueva LG, Matheny MH, Sader JE, Roukes ML | Physical review letters | 23003973 | Phys Rev Lett | 2012 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/23003973 |
| Passive phase noise cancellation scheme. | Kenig E, Cross MC, Lifshitz R, Karabalin RB, Villanueva LG, Matheny MH, Roukes ML | Physical review letters | 23004985 | Phys Rev Lett | 2012 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/23004985 |
| Nonlinear mode-coupling in nanomechanical systems. | Matheny MH, Villanueva LG, Karabalin RB, Sader JE, Roukes ML | Nano letters | 23496001 | Nano Lett | 2013 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/23496001 |
| Surface adsorbate fluctuations and noise in nanoelectromechanical systems. | Yang YT, Callegari C, Feng XL, Roukes ML | Nano letters | 21388120 | Nano Lett | 2011 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/21388120 |
| Genome-wide identification and functional analysis of Apobec-1-mediated C-to-U RNA editing in mouse small intestine and liver. | Blanc V, Park E, Schaefer S, Miller M, Lin Y, Kennedy S, Billing AM, Ben Hamidane H, Graumann J, Mortazavi A, Nadeau JH, Davidson NO | Genome biology | 24946870 | Genome Biol | 2014 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/24946870 |
| Transgenerational epigenetic effects of the Apobec1 cytidine deaminase deficiency on testicular germ cell tumor susceptibility and embryonic viability. | Nelson VR, Heaney JD, Tesar PJ, Davidson NO, Nadeau JH | Proceedings of the National Academy of Sciences of the United States of America | 22923694 | Proc Natl Acad Sci U S A | 2012 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/22923694 |
| CMV infection, TLR-2 and -4 expression, and cytokine profiles in early-onset preeclampsia with HELLP syndrome. | Xie F, von Dadelszen P, Nadeau J | American journal of reproductive immunology (New York, N.Y. : 1989) | 24612145 | Am J Reprod Immunol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24612145 |
| Transgenerational genetic effects. | Nelson VR, Nadeau JH | Epigenomics | 22122083 | Epigenomics | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22122083 |
| Maternal nutrition induces pervasive gene expression changes but no detectable DNA methylation differences in the liver of adult offspring. | Cannon MV, Buchner DA, Hester J, Miller H, Sehayek E, Nadeau JH, Serre D | PloS one | 24594983 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24594983 |
| Transgenerational genetic effects of the paternal Y chromosome on daughters' phenotypes. | Nelson VR, Spiezio SH, Nadeau JH | Epigenomics | 22121971 | Epigenomics | 2010 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22121971 |
| Report of the National Heart, Lung, and Blood Institute Working Group on epigenetics and hypertension. | Cowley AW Jr, Nadeau JH, Baccarelli A, Berecek K, Fornage M, Gibbons GH, Harrison DG, Liang M, Nathanielsz PW, O'Connor DT, Ordovas J, Peng W, Soares MB, Szyf M, Tolunay HE, Wood KC, Zhao K, Galis ZS | Hypertension (Dallas, Tex. : 1979) | 22431584 | Hypertension | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22431584 |
| Synthetic protein-protein interaction domains created by shuffling Cys2His2 zinc-fingers. | Giesecke AV, Fang R, Joung JK | Molecular systems biology | 16732192 | Mol Syst Biol | 2006 | https://www.ncbi.nlm.nih.gov/pubmed/16732192 |
| Synergistic activation of transcription by Escherichia coli cAMP receptor protein. | Joung JK, Le LU, Hochschild A | Proceedings of the National Academy of Sciences of the United States of America | 7681995 | Proc Natl Acad Sci U S A | 1993 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/7681995 |
| Activation of prokaryotic transcription through arbitrary protein-protein contacts. | Dove SL, Joung JK, Hochschild A | Nature | 9121589 | Nature | 1997 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/9121589 |
| Structural and functional characterization of human immunodeficiency virus tat protein. | Ruben S, Perkins A, Purcell R, Joung K, Sia R, Burghoff R, Haseltine WA, Rosen CA | Journal of virology | 2535718 | J Virol | 1989 Jan | https://www.ncbi.nlm.nih.gov/pubmed/2535718 |
| ZFNGenome: a comprehensive resource for locating zinc finger nuclease target sites in model organisms. | Reyon D, Kirkpatrick JR, Sander JD, Zhang F, Voytas DF, Joung JK, Dobbs D, Coffman CR | BMC genomics | 21276248 | BMC Genomics | 2011 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/21276248 |
| The bacterial two-hybrid system as a reporter system for analyzing protein-protein interactions. | Giesecke AV, Joung JK | CSH protocols | 21357036 | CSH Protoc | 2007 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/21357036 |
| Engineering customized TALE nucleases (TALENs) and TALE transcription factors by fast ligation-based automatable solid-phase high-throughput (FLASH) assembly. | Reyon D, Maeder ML, Khayter C, Tsai SQ, Foley JE, Sander JD, Joung JK | Current protocols in molecular biology | 23821439 | Curr Protoc Mol Biol | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23821439 |
| High-frequency modification of plant genes using engineered zinc-finger nucleases. | Townsend JA, Wright DA, Winfrey RJ, Fu F, Maeder ML, Joung JK, Voytas DF | Nature | 19404258 | Nature | 2009 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/19404258 |
| A synthetic biology framework for programming eukaryotic transcription functions. | Khalil AS, Lu TK, Bashor CJ, Ramirez CL, Pyenson NC, Joung JK, Collins JJ | Cell | 22863014 | Cell | 2012 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/22863014 |
| Targeted gene disruption in somatic zebrafish cells using engineered TALENs. | Sander JD, Cade L, Khayter C, Reyon D, Peterson RT, Joung JK, Yeh JR | Nature biotechnology | 21822241 | Nat Biotechnol | 2011 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/21822241 |
| Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method. | Meng X, Thibodeau-Beganny S, Jiang T, Joung JK, Wolfe SA | Nucleic acids research | 17537811 | Nucleic Acids Res | 2007 | https://www.ncbi.nlm.nih.gov/pubmed/17537811 |
| Standardized reagents and protocols for engineering zinc finger nucleases by modular assembly. | Wright DA, Thibodeau-Beganny S, Sander JD, Winfrey RJ, Hirsh AS, Eichtinger M, Fu F, Porteus MH, Dobbs D, Voytas DF, Joung JK | Nature protocols | 17406455 | Nat Protoc | 2006 | https://www.ncbi.nlm.nih.gov/pubmed/17406455 |
| Engineering designer nucleases with customized cleavage specificities. | Sander JD, Maeder ML, Joung JK | Current protocols in molecular biology | 21987054 | Curr Protoc Mol Biol | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21987054 |
| CAUSEL: an epigenome- and genome-editing pipeline for establishing function of noncoding GWAS variants. | Spisák S, Lawrenson K, Fu Y, Csabai I, Cottman RT, Seo JH, Haiman C, Han Y, Lenci R, Li Q, Tisza V, Szállási Z, Herbert ZT, Chabot M, Pomerantz M, Solymosi N, GAME-ON/ELLIPSE Consortium, Gayther SA, Joung JK, Freedman ML | Nature medicine | 26398868 | Nat Med | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26398868 |
| Pathways disrupted in human ALS motor neurons identified through genetic correction of mutant SOD1. | Kiskinis E, Sandoe J, Williams LA, Boulting GL, Moccia R, Wainger BJ, Han S, Peng T, Thams S, Mikkilineni S, Mellin C, Merkle FT, Davis-Dusenbery BN, Ziller M, Oakley D, Ichida J, Di Costanzo S, Atwater N, Maeder ML, Goodwin MJ, Nemesh J, Handsaker RE, Paull D, Noggle S, McCarroll SA, Joung JK, Woolf CJ, Brown RH, Eggan K | Cell stem cell | 24704492 | Cell Stem Cell | 2014 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/24704492 |
| Multidimensional control of therapeutic human cell function with synthetic gene circuits. | Li HS, Israni DV, Gagnon KA, Gan KA, Raymond MH, Sander JD, Roybal KT, Joung JK, Wong WW, Khalil AS | Science (New York, N.Y.) | 36520914 | Science | 2022 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/36520914 |
| Genome-wide functional perturbation of human microsatellite repeats using engineered zinc finger transcription factors. | Tak YE, Boulay G, Lee L, Iyer S, Perry NT, Schultz HT, Garcia SP, Broye L, Horng JE, Rengarajan S, Naigles B, Volorio A, Sander JD, Gong J, Riggi N, Joung JK, Rivera MN | Cell genomics | 35967079 | Cell Genom | 2022 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/35967079 |
| Identifying and modifying protein-DNA and protein-protein interactions using a bacterial two-hybrid selection system. | Joung JK | Journal of cellular biochemistry. Supplement | 11842428 | J Cell Biochem Suppl | 2001 | https://www.ncbi.nlm.nih.gov/pubmed/11842428 |
| Zinc Finger Targeter (ZiFiT): an engineered zinc finger/target site design tool. | Sander JD, Zaback P, Joung JK, Voytas DF, Dobbs D | Nucleic acids research | 17526515 | Nucleic Acids Res | 2007 Jul | https://www.ncbi.nlm.nih.gov/pubmed/17526515 |
| High-throughput beta-galactosidase assay for bacterial cell-based reporter systems. | Thibodeau SA, Fang R, Joung JK | BioTechniques | 15038156 | Biotechniques | 2004 Mar | https://www.ncbi.nlm.nih.gov/pubmed/15038156 |
| Highly specific zinc finger proteins obtained by directed domain shuffling and cell-based selection. | Hurt JA, Thibodeau SA, Hirsh AS, Pabo CO, Joung JK | Proceedings of the National Academy of Sciences of the United States of America | 14527993 | Proc Natl Acad Sci U S A | 2003 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/14527993 |
| Targeted mutagenesis of duplicated genes in soybean with zinc-finger nucleases. | Curtin SJ, Zhang F, Sander JD, Haun WJ, Starker C, Baltes NJ, Reyon D, Dahlborg EJ, Goodwin MJ, Coffman AP, Dobbs D, Joung JK, Voytas DF, Stupar RM | Plant physiology | 21464476 | Plant Physiol | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21464476 |
| An affinity-based scoring scheme for predicting DNA-binding activities of modularly assembled zinc-finger proteins. | Sander JD, Zaback P, Joung JK, Voytas DF, Dobbs D | Nucleic acids research | 19056825 | Nucleic Acids Res | 2009 Feb | https://www.ncbi.nlm.nih.gov/pubmed/19056825 |
| Predicting success of oligomerized pool engineering (OPEN) for zinc finger target site sequences. | Sander JD, Reyon D, Maeder ML, Foley JE, Thibodeau-Beganny S, Li X, Regan MR, Dahlborg EJ, Goodwin MJ, Fu F, Voytas DF, Joung JK, Dobbs D | BMC bioinformatics | 21044337 | BMC Bioinformatics | 2010 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/21044337 |
| Autonomous zinc-finger nuclease pairs for targeted chromosomal deletion. | Söllü C, Pars K, Cornu TI, Thibodeau-Beganny S, Maeder ML, Joung JK, Heilbronn R, Cathomen T | Nucleic acids research | 20716517 | Nucleic Acids Res | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20716517 |
| Zinc Finger Database (ZiFDB): a repository for information on C2H2 zinc fingers and engineered zinc-finger arrays. | Fu F, Sander JD, Maeder M, Thibodeau-Beganny S, Joung JK, Dobbs D, Miller L, Voytas DF | Nucleic acids research | 18812396 | Nucleic Acids Res | 2009 Jan | https://www.ncbi.nlm.nih.gov/pubmed/18812396 |
| Plant science. DNA binding made easy. | Voytas DF, Joung JK | Science (New York, N.Y.) | 20007890 | Science | 2009 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/20007890 |
| Revealing off-target cleavage specificities of zinc-finger nucleases by in vitro selection. | Pattanayak V, Ramirez CL, Joung JK, Liu DR | Nature methods | 21822273 | Nat Methods | 2011 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/21822273 |
| In situ genetic correction of the sickle cell anemia mutation in human induced pluripotent stem cells using engineered zinc finger nucleases. | Sebastiano V, Maeder ML, Angstman JF, Haddad B, Khayter C, Yeo DT, Goodwin MJ, Hawkins JS, Ramirez CL, Batista LF, Artandi SE, Wernig M, Joung JK | Stem cells (Dayton, Ohio) | 21898685 | Stem Cells | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21898685 |
| Selection-free zinc-finger-nuclease engineering by context-dependent assembly (CoDA). | Sander JD, Dahlborg EJ, Goodwin MJ, Cade L, Zhang F, Cifuentes D, Curtin SJ, Blackburn JS, Thibodeau-Beganny S, Qi Y, Pierick CJ, Hoffman E, Maeder ML, Khayter C, Reyon D, Dobbs D, Langenau DM, Stupar RM, Giraldez AJ, Voytas DF, Peterson RT, Yeh JR, Joung JK | Nature methods | 21151135 | Nat Methods | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21151135 |
| TALEN-based gene correction for epidermolysis bullosa. | Osborn MJ, Starker CG, McElroy AN, Webber BR, Riddle MJ, Xia L, DeFeo AP, Gabriel R, Schmidt M, von Kalle C, Carlson DF, Maeder ML, Joung JK, Wagner JE, Voytas DF, Blazar BR, Tolar J | Molecular therapy : the journal of the American Society of Gene Therapy | 23546300 | Mol Ther | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23546300 |
| Engineered zinc finger nickases induce homology-directed repair with reduced mutagenic effects. | Ramirez CL, Certo MT, Mussolino C, Goodwin MJ, Cradick TJ, McCaffrey AP, Cathomen T, Scharenberg AM, Joung JK | Nucleic acids research | 22373919 | Nucleic Acids Res | 2012 Jul | https://www.ncbi.nlm.nih.gov/pubmed/22373919 |
| Heritable and precise zebrafish genome editing using a CRISPR-Cas system. | Hwang WY, Fu Y, Reyon D, Maeder ML, Kaini P, Sander JD, Joung JK, Peterson RT, Yeh JR | PloS one | 23874735 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23874735 |
| A combined yeast/bacteria two-hybrid system: development and evaluation. | Serebriiskii IG, Fang R, Latypova E, Hopkins R, Vinson C, Joung JK, Golemis EA | Molecular & cellular proteomics : MCP | 15781424 | Mol Cell Proteomics | 2005 Jun | https://www.ncbi.nlm.nih.gov/pubmed/15781424 |
| Improved somatic mutagenesis in zebrafish using transcription activator-like effector nucleases (TALENs). | Moore FE, Reyon D, Sander JD, Martinez SA, Blackburn JS, Khayter C, Ramirez CL, Joung JK, Langenau DM | PloS one | 22655075 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22655075 |
| Robust, synergistic regulation of human gene expression using TALE activators. | Maeder ML, Linder SJ, Reyon D, Angstman JF, Fu Y, Sander JD, Joung JK | Nature methods | 23396285 | Nat Methods | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23396285 |
| DNA-binding specificity is a major determinant of the activity and toxicity of zinc-finger nucleases. | Cornu TI, Thibodeau-Beganny S, Guhl E, Alwin S, Eichtinger M, Joung JK, Cathomen T | Molecular therapy : the journal of the American Society of Gene Therapy | 18026168 | Mol Ther | 2008 Feb | https://www.ncbi.nlm.nih.gov/pubmed/18026168 |
| An improved strategy for constructing "designer" Cys2His2 zinc finger proteins. | Thibodeau SA, Joung JK | Discovery medicine.. | 20705034 | Discov Med | 2003 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20705034 |
| Unexpected failure rates for modular assembly of engineered zinc fingers. | Ramirez CL, Foley JE, Wright DA, Müller-Lerch F, Rahman SH, Cornu TI, Winfrey RJ, Sander JD, Fu F, Townsend JA, Cathomen T, Voytas DF, Joung JK | Nature methods | 18446154 | Nat Methods | 2008 May | https://www.ncbi.nlm.nih.gov/pubmed/18446154 |
| ZiFiT (Zinc Finger Targeter): an updated zinc finger engineering tool. | Sander JD, Maeder ML, Reyon D, Voytas DF, Joung JK, Dobbs D | Nucleic acids research | 20435679 | Nucleic Acids Res | 2010 Jul | https://www.ncbi.nlm.nih.gov/pubmed/20435679 |
| Allosteric inhibition of zinc-finger binding in the major groove of DNA by minor-groove binding ligands. | Nguyen-Hackley DH, Ramm E, Taylor CM, Joung JK, Dervan PB, Pabo CO | Biochemistry | 15049695 | Biochemistry | 2004 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/15049695 |
| Comparison of zinc finger nucleases for use in gene targeting in mammalian cells. | Pruett-Miller SM, Connelly JP, Maeder ML, Joung JK, Porteus MH | Molecular therapy : the journal of the American Society of Gene Therapy | 18334988 | Mol Ther | 2008 Apr | https://www.ncbi.nlm.nih.gov/pubmed/18334988 |
| Targeted mutagenesis in zebrafish using customized zinc-finger nucleases. | Foley JE, Maeder ML, Pearlberg J, Joung JK, Peterson RT, Yeh JR | Nature protocols | 20010934 | Nat Protoc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/20010934 |
| Genome editing with modularly assembled zinc-finger nucleases. | Kim JS, Lee HJ, Carroll D | Nature methods | 20111032 | Nat Methods | 2010 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20111032 |
| Chromatin regulation at the frontier of synthetic biology. | Keung AJ, Joung JK, Khalil AS, Collins JJ | Nature reviews. Genetics | 25668787 | Nat Rev Genet | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25668787 |
| A bacterial two-hybrid selection system for studying protein-DNA and protein-protein interactions. | Joung JK, Ramm EI, Pabo CO | Proceedings of the National Academy of Sciences of the United States of America | 10852947 | Proc Natl Acad Sci U S A | 2000 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/10852947 |
| Repression of phase-variable cup gene expression by H-NS-like proteins in Pseudomonas aeruginosa. | Vallet-Gely I, Donovan KE, Fang R, Joung JK, Dove SL | Proceedings of the National Academy of Sciences of the United States of America | 16043713 | Proc Natl Acad Sci U S A | 2005 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/16043713 |
| Counter-selectable marker for bacterial-based interaction trap systems. | Meng X, Smith RM, Giesecke AV, Joung JK, Wolfe SA | BioTechniques | 16526407 | Biotechniques | 2006 Feb | https://www.ncbi.nlm.nih.gov/pubmed/16526407 |
| Synergistic activation of transcription by bacteriophage lambda cI protein and E. coli cAMP receptor protein. | Joung JK, Koepp DM, Hochschild A | Science (New York, N.Y.) | 8091212 | Science | 1994 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/8091212 |
| Genetic strategy for analyzing specificity of dimer formation: Escherichia coli cyclic AMP receptor protein mutant altered in its dimerization specificity. | Joung JK, Chung EH, King G, Yu C, Hirsh AS, Hochschild A | Genes & development | 7498794 | Genes Dev | 1995 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/7498794 |
| Highly efficient generation of heritable zebrafish gene mutations using homo- and heterodimeric TALENs. | Cade L, Reyon D, Hwang WY, Tsai SQ, Patel S, Khayter C, Joung JK, Sander JD, Peterson RT, Yeh JR | Nucleic acids research | 22684503 | Nucleic Acids Res | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22684503 |
| Engineering designer transcription activator-like effector nucleases (TALENs) by REAL or REAL-Fast assembly. | Reyon D, Khayter C, Regan MR, Joung JK, Sander JD | Current protocols in molecular biology | 23026907 | Curr Protoc Mol Biol | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23026907 |
| FLASH assembly of TALENs for high-throughput genome editing. | Reyon D, Tsai SQ, Khayter C, Foden JA, Sander JD, Joung JK | Nature biotechnology | 22484455 | Nat Biotechnol | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22484455 |
| Rapid mutation of endogenous zebrafish genes using zinc finger nucleases made by Oligomerized Pool ENgineering (OPEN). | Foley JE, Yeh JR, Maeder ML, Reyon D, Sander JD, Peterson RT, Joung JK | PloS one | 19198653 | PLoS One | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19198653 |
| Engineering Cys2His2 zinc finger domains using a bacterial cell-based two-hybrid selection system. | Thibodeau-Beganny S, Joung JK | Methods in molecular biology (Clifton, N.J.) | 18314590 | Methods Mol Biol | 2007 | https://www.ncbi.nlm.nih.gov/pubmed/18314590 |
| Engineering zinc finger nucleases for targeted mutagenesis of zebrafish. | Sander JD, Yeh JR, Peterson RT, Joung JK | Methods in cell biology | 21924156 | Methods Cell Biol | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21924156 |
| Gene targeting of a disease-related gene in human induced pluripotent stem and embryonic stem cells. | Zou J, Maeder ML, Mali P, Pruett-Miller SM, Thibodeau-Beganny S, Chou BK, Chen G, Ye Z, Park IH, Daley GQ, Porteus MH, Joung JK, Cheng L | Cell stem cell | 19540188 | Cell Stem Cell | 2009 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/19540188 |
| Oligomerized pool engineering (OPEN): an 'open-source' protocol for making customized zinc-finger arrays. | Maeder ML, Thibodeau-Beganny S, Sander JD, Voytas DF, Joung JK | Nature protocols | 19798082 | Nat Protoc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19798082 |
| Engineering single Cys2His2 zinc finger domains using a bacterial cell-based two-hybrid selection system. | Thibodeau-Beganny S, Maeder ML, Joung JK | Methods in molecular biology (Clifton, N.J.) | 20680826 | Methods Mol Biol | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/20680826 |
| Zinc-finger nucleases: the next generation emerges. | Cathomen T, Joung JK | Molecular therapy : the journal of the American Society of Gene Therapy | 18545224 | Mol Ther | 2008 Jul | https://www.ncbi.nlm.nih.gov/pubmed/18545224 |
| Rapid "open-source" engineering of customized zinc-finger nucleases for highly efficient gene modification. | Maeder ML, Thibodeau-Beganny S, Osiak A, Wright DA, Anthony RM, Eichtinger M, Jiang T, Foley JE, Winfrey RJ, Townsend JA, Unger-Wallace E, Sander JD, Müller-Lerch F, Fu F, Pearlberg J, Göbel C, Dassie JP, Pruett-Miller SM, Porteus MH, Sgroi DC, Iafrate AJ, Dobbs D, McCray PB Jr, Cathomen T, Voytas DF, Joung JK | Molecular cell | 18657511 | Mol Cell | 2008 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/18657511 |
| In vivo veritas, in vitro artificia. | Matarese G, La Cava A, Horvath TL | Trends in molecular medicine | 22682514 | Trends Mol Med | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22682514 |
| High-fat feeding promotes obesity via insulin receptor/PI3K-dependent inhibition of SF-1 VMH neurons. | Klöckener T, Hess S, Belgardt BF, Paeger L, Verhagen LA, Husch A, Sohn JW, Hampel B, Dhillon H, Zigman JM, Lowell BB, Williams KW, Elmquist JK, Horvath TL, Kloppenburg P, Brüning JC | Nature neuroscience | 21642975 | Nat Neurosci | 2011 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/21642975 |
| An oscillatory switch in mTOR kinase activity sets regulatory T cell responsiveness. | Procaccini C, De Rosa V, Galgani M, Abanni L, Calì G, Porcellini A, Carbone F, Fontana S, Horvath TL, La Cava A, Matarese G | Immunity | 21145759 | Immunity | 2010 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/21145759 |
| Prolonged oxaliplatin exposure alters intracellular calcium signaling: a new mechanism to explain oxaliplatin-associated peripheral neuropathy. | Schulze C, McGowan M, Jordt SE, Ehrlich BE | Clinical colorectal cancer | 21859566 | Clin Colorectal Cancer | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21859566 |
| Intranasal epidermal growth factor treatment rescues neonatal brain injury. | Scafidi J, Hammond TR, Scafidi S, Ritter J, Jablonska B, Roncal M, Szigeti-Buck K, Coman D, Huang Y, McCarter RJ Jr, Hyder F, Horvath TL, Gallo V | Nature | 24390343 | Nature | 2014 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/24390343 |
| CPG15 regulates synapse stability in the developing and adult brain. | Fujino T, Leslie JH, Eavri R, Chen JL, Lin WC, Flanders GH, Borok E, Horvath TL, Nedivi E | Genes & development | 22190461 | Genes Dev | 2011 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/22190461 |
| Role of breast cancer resistance protein in the adaptive response to cholestasis. | Mennone A, Soroka CJ, Harry KM, Boyer JL | Drug metabolism and disposition: the biological fate of chemicals | 20601550 | Drug Metab Dispos | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20601550 |
| Mitofusin 2 in POMC neurons connects ER stress with leptin resistance and energy imbalance. | Schneeberger M, Dietrich MO, Sebastián D, Imbernón M, Castaño C, Garcia A, Esteban Y, Gonzalez-Franquesa A, Rodríguez IC, Bortolozzi A, Garcia-Roves PM, Gomis R, Nogueiras R, Horvath TL, Zorzano A, Claret M | Cell | 24074867 | Cell | 2013 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/24074867 |
| GPA protects the nigrostriatal dopamine system by enhancing mitochondrial function. | Horvath TL, Erion DM, Elsworth JD, Roth RH, Shulman GI, Andrews ZB | Neurobiology of disease | 21406233 | Neurobiol Dis | 2011 Jul | https://www.ncbi.nlm.nih.gov/pubmed/21406233 |
| Oligodendrocyte regeneration after neonatal hypoxia requires FoxO1-mediated p27Kip1 expression. | Jablonska B, Scafidi J, Aguirre A, Vaccarino F, Nguyen V, Borok E, Horvath TL, Rowitch DH, Gallo V | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23077062 | J Neurosci | 2012 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/23077062 |
| Peroxisome proliferation-associated control of reactive oxygen species sets melanocortin tone and feeding in diet-induced obesity. | Diano S, Liu ZW, Jeong JK, Dietrich MO, Ruan HB, Kim E, Suyama S, Kelly K, Gyengesi E, Arbiser JL, Belsham DD, Sarruf DA, Schwartz MW, Bennett AM, Shanabrough M, Mobbs CV, Yang X, Gao XB, Horvath TL | Nature medicine | 21873987 | Nat Med | 2011 Aug 28 | https://www.ncbi.nlm.nih.gov/pubmed/21873987 |
| Mitofusin 2 in Mature Adipocytes Controls Adiposity and Body Weight. | Mancini G, Pirruccio K, Yang X, Blüher M, Rodeheffer M, Horvath TL | Cell reports | 30865877 | Cell Rep | 2019 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/30865877 |
| FoxO1 target Gpr17 activates AgRP neurons to regulate food intake. | Ren H, Orozco IJ, Su Y, Suyama S, Gutiérrez-Juárez R, Horvath TL, Wardlaw SL, Plum L, Arancio O, Accili D | Cell | 22682251 | Cell | 2012 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/22682251 |
| UCP2 induced by natural birth regulates neuronal differentiation of the hippocampus and related adult behavior. | Simon-Areces J, Dietrich MO, Hermes G, Garcia-Segura LM, Arevalo MA, Horvath TL | PloS one | 22905184 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22905184 |
| Ghrelin-immunopositive hypothalamic neurons tie the circadian clock and visual system to the lateral hypothalamic arousal center. | Horvath TL, Abizaid A, Dietrich MO, Li Y, Takahashi JS, Bass J | Molecular metabolism | 24024121 | Mol Metab | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/24024121 |
| Hypothalamic Agrp neurons drive stereotypic behaviors beyond feeding. | Dietrich MO, Zimmer MR, Bober J, Horvath TL | Cell | 25748653 | Cell | 2015 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/25748653 |
| Nicotine decreases food intake through activation of POMC neurons. | Mineur YS, Abizaid A, Rao Y, Salas R, DiLeone RJ, Gündisch D, Diano S, De Biasi M, Horvath TL, Gao XB, Picciotto MR | Science (New York, N.Y.) | 21659607 | Science | 2011 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/21659607 |
| The aging stress response. | Haigis MC, Yankner BA | Molecular cell | 20965426 | Mol Cell | 2010 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/20965426 |
| The DNA damage response induces inflammation and senescence by inhibiting autophagy of GATA4. | Kang C, Xu Q, Martin TD, Li MZ, Demaria M, Aron L, Lu T, Yankner BA, Campisi J, Elledge SJ | Science (New York, N.Y.) | 26404840 | Science | 2015 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/26404840 |
| Polygenic hazard score: an enrichment marker for Alzheimer's associated amyloid and tau deposition. | Tan CH, Fan CC, Mormino EC, Sugrue LP, Broce IJ, Hess CP, Dillon WP, Bonham LW, Yokoyama JS, Karch CM, Brewer JB, Rabinovici GD, Miller BL, Schellenberg GD, Kauppi K, Feldman HA, Holland D, McEvoy LK, Hyman BT, Bennett DA, Andreassen OA, Dale AM, Desikan RS, Alzheimer’s Disease Neuroimaging Initiative | Acta neuropathologica | 29177679 | Acta Neuropathol | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29177679 |
| A neurodegeneration checkpoint mediated by REST protects against the onset of Alzheimer's disease. | Aron L, Qiu C, Ngian ZK, Liang M, Drake D, Choi J, Fernandez MA, Roche P, Bunting EL, Lacey EK, Hamplova SE, Yuan M, Wolfe MS, Bennett DA, Lee EA, Yankner BA | Nature communications | 37919281 | Nat Commun | 2023 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/37919281 |
| REST and Neural Gene Network Dysregulation in iPSC Models of Alzheimer's Disease. | Meyer K, Feldman HM, Lu T, Drake D, Lim ET, Ling KH, Bishop NA, Pan Y, Seo J, Lin YT, Su SC, Church GM, Tsai LH, Yankner BA | Cell reports | 30699343 | Cell Rep | 2019 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/30699343 |
| Physiology: Inflammation links ageing to the brain. | Gabuzda D, Yankner BA | Nature | 23636321 | Nature | 2013 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/23636321 |
| REST and stress resistance in ageing and Alzheimer's disease. | Lu T, Aron L, Zullo J, Pan Y, Kim H, Chen Y, Yang TH, Kim HM, Drake D, Liu XS, Bennett DA, Colaiácovo MP, Yankner BA | Nature | 24670762 | Nature | 2014 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/24670762 |
| Common variants in DRD2 are associated with sleep duration: the CARe consortium. | Cade BE, Gottlieb DJ, Lauderdale DS, Bennett DA, Buchman AS, Buxbaum SG, De Jager PL, Evans DS, Fülöp T, Gharib SA, Johnson WC, Kim H, Larkin EK, Lee SK, Lim AS, Punjabi NM, Shin C, Stone KL, Tranah GJ, Weng J, Yaffe K, Zee PC, Patel SR, Zhu X, Redline S, Saxena R | Human molecular genetics | 26464489 | Hum Mol Genet | 2016 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/26464489 |
| Regulation of lifespan by neural excitation and REST. | Zullo JM, Drake D, Aron L, O'Hern P, Dhamne SC, Davidsohn N, Mao CA, Klein WH, Rotenberg A, Bennett DA, Church GM, Colaiácovo MP, Yankner BA | Nature | 31619788 | Nature | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31619788 |
| Neurodegenerative disorders: Neural synchronization in Alzheimer's disease. | Aron L, Yankner BA | Nature | 27929001 | Nature | 2016 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/27929001 |
| Alzheimer's Disease Risk Polymorphisms Regulate Gene Expression in the ZCWPW1 and the CELF1 Loci. | Karch CM, Ezerskiy LA, Bertelsen S, Alzheimer’s Disease Genetics Consortium (ADGC), Goate AM | PloS one | 26919393 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26919393 |
| Prospect for feedback guided surgery with ultra-short pulsed laser light. | Jeong DC, Tsai PS, Kleinfeld D | Current opinion in neurobiology | 22088392 | Curr Opin Neurobiol | 2012 Feb | https://www.ncbi.nlm.nih.gov/pubmed/22088392 |
| Large-scale automated histology in the pursuit of connectomes. | Kleinfeld D, Bharioke A, Blinder P, Bock DD, Briggman KL, Chklovskii DB, Denk W, Helmstaedter M, Kaufhold JP, Lee WC, Meyer HS, Micheva KD, Oberlaender M, Prohaska S, Reid RC, Smith SJ, Takemura S, Tsai PS, Sakmann B | The Journal of neuroscience : the official journal of the Society for Neuroscience | 22072665 | J Neurosci | 2011 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/22072665 |
| Ultra-large field-of-view two-photon microscopy. | Tsai PS, Mateo C, Field JJ, Schaffer CB, Anderson ME, Kleinfeld D | Optics express | 26072755 | Opt Express | 2015 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/26072755 |
| Differential Multiphoton Laser Scanning Microscopy. | Field JJ, Sheetz KE, Chandler EV, Hoover EE, Young MD, Ding SY, Sylvester AW, Kleinfeld D, Squier JA | IEEE journal of selected topics in quantum electronics : a publication of the IEEE Lasers and Electro-optics Society | 27390511 | IEEE J Sel Top Quantum Electron | 2012 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/27390511 |
| All-optical osteotomy to create windows for transcranial imaging in mice. | Jeong DC, Tsai PS, Kleinfeld D | Optics express | 24104230 | Opt Express | 2013 Oct 7 | https://www.ncbi.nlm.nih.gov/pubmed/24104230 |
| The capillary bed offers the largest hemodynamic resistance to the cortical blood supply. | Gould IG, Tsai P, Kleinfeld D, Linninger A | Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism | 27780904 | J Cereb Blood Flow Metab | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27780904 |
| Precision mapping of the vibrissa representation within murine primary somatosensory cortex. | Knutsen PM, Mateo C, Kleinfeld D | Philosophical transactions of the Royal Society of London. Series B, Biological sciences | 27574305 | Philos Trans R Soc Lond B Biol Sci | 2016 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/27574305 |
| A guide to delineate the logic of neurovascular signaling in the brain. | Kleinfeld D, Blinder P, Drew PJ, Driscoll JD, Muller A, Tsai PS, Shih AY | Frontiers in neuroenergetics | 21559095 | Front Neuroenergetics | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21559095 |
| Quality metrics to accompany spike sorting of extracellular signals. | Hill DN, Mehta SB, Kleinfeld D | The Journal of neuroscience : the official journal of the Society for Neuroscience | 21677152 | J Neurosci | 2011 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/21677152 |
| Characterizing ligand-gated ion channel receptors with genetically encoded Ca2++ sensors. | Yamauchi JG, Nemecz Á, Nguyen QT, Muller A, Schroeder LF, Talley TT, Lindstrom J, Kleinfeld D, Taylor P | PloS one | 21305050 | PLoS One | 2011 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/21305050 |
| Two-photon microscopy as a tool to study blood flow and neurovascular coupling in the rodent brain. | Shih AY, Driscoll JD, Drew PJ, Nishimura N, Schaffer CB, Kleinfeld D | Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism | 22293983 | J Cereb Blood Flow Metab | 2012 Jul | https://www.ncbi.nlm.nih.gov/pubmed/22293983 |
| A polished and reinforced thinned-skull window for long-term imaging of the mouse brain. | Shih AY, Mateo C, Drew PJ, Tsai PS, Kleinfeld D | Journal of visualized experiments : JoVE | 22433225 | J Vis Exp | 2012 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/22433225 |
| Vectorization of optically sectioned brain microvasculature: learning aids completion of vascular graphs by connecting gaps and deleting open-ended segments. | Kaufhold JP, Tsai PS, Blinder P, Kleinfeld D | Medical image analysis | 22854035 | Med Image Anal | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22854035 |
| Construction of Cell-based Neurotransmitter Fluorescent Engineered Reporters (CNiFERs) for Optical Detection of Neurotransmitters In Vivo. | Lacin E, Muller A, Fernando M, Kleinfeld D, Slesinger PA | Journal of visualized experiments : JoVE | 27214050 | J Vis Exp | 2016 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/27214050 |
| ReaChR: a red-shifted variant of channelrhodopsin enables deep transcranial optogenetic excitation. | Lin JY, Knutsen PM, Muller A, Kleinfeld D, Tsien RY | Nature neuroscience | 23995068 | Nat Neurosci | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23995068 |
| The challenge of connecting the dots in the B.R.A.I.N. | Devor A, Bandettini PA, Boas DA, Bower JM, Buxton RB, Cohen LB, Dale AM, Einevoll GT, Fox PT, Franceschini MA, Friston KJ, Fujimoto JG, Geyer MA, Greenberg JH, Halgren E, Hämäläinen MS, Helmchen F, Hyman BT, Jasanoff A, Jernigan TL, Judd LL, Kim SG, Kleinfeld D, Kopell NJ, Kutas M, Kwong KK, Larkum ME, Lo EH, Magistretti PJ, Mandeville JB, Masliah E, Mitra PP, Mobley WC, Moskowitz MA, Nimmerjahn A, Reynolds JH, Rosen BR, Salzberg BM, Schaffer CB, Silva GA, So PT, Spitzer NC, Tootell RB, Van Essen DC, Vanduffel W, Vinogradov SA, Wald LL, Wang LV, Weber B, Yodh AG | Neuron | 24139032 | Neuron | 2013 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/24139032 |
| The smallest stroke: occlusion of one penetrating vessel leads to infarction and a cognitive deficit. | Shih AY, Blinder P, Tsai PS, Friedman B, Stanley G, Lyden PD, Kleinfeld D | Nature neuroscience | 23242312 | Nat Neurosci | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23242312 |
| Automatic identification of fluorescently labeled brain cells for rapid functional imaging. | Valmianski I, Shih AY, Driscoll JD, Matthews DW, Freund Y, Kleinfeld D | Journal of neurophysiology | 20610792 | J Neurophysiol | 2010 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20610792 |
| Photon counting, censor corrections, and lifetime imaging for improved detection in two-photon microscopy. | Driscoll JD, Shih AY, Iyengar S, Field JJ, White GA, Squier JA, Cauwenberghs G, Kleinfeld D | Journal of neurophysiology | 21471395 | J Neurophysiol | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21471395 |
| Chronic optical access through a polished and reinforced thinned skull. | Drew PJ, Shih AY, Driscoll JD, Knutsen PM, Blinder P, Davalos D, Akassoglou K, Tsai PS, Kleinfeld D | Nature methods | 20966916 | Nat Methods | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20966916 |
| Cell-based reporters reveal in vivo dynamics of dopamine and norepinephrine release in murine cortex. | Muller A, Joseph V, Slesinger PA, Kleinfeld D | Nature methods | 25344639 | Nat Methods | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25344639 |
| The cortical angiome: an interconnected vascular network with noncolumnar patterns of blood flow. | Blinder P, Tsai PS, Kaufhold JP, Knutsen PM, Suhl H, Kleinfeld D | Nature neuroscience | 23749145 | Nat Neurosci | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23749145 |
| Robust and fragile aspects of cortical blood flow in relation to the underlying angioarchitecture. | Shih AY, Rühlmann C, Blinder P, Devor A, Drew PJ, Friedman B, Knutsen PM, Lyden PD, Mateo C, Mellander L, Nishimura N, Schaffer CB, Tsai PS, Kleinfeld D | Microcirculation (New York, N.Y. : 1994) | 25705966 | Microcirculation | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25705966 |
| The roadmap for estimation of cell-type-specific neuronal activity from non-invasive measurements. | Uhlirova H, Kılıç K, Tian P, Sakadžić S, Gagnon L, Thunemann M, Desjardins M, Saisan PA, Nizar K, Yaseen MA, Hagler DJ Jr, Vandenberghe M, Djurovic S, Andreassen OA, Silva GA, Masliah E, Kleinfeld D, Vinogradov S, Buxton RB, Einevoll GT, Boas DA, Dale AM, Devor A | Philosophical transactions of the Royal Society of London. Series B, Biological sciences | 27574309 | Philos Trans R Soc Lond B Biol Sci | 2016 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/27574309 |
| Fluctuating and sensory-induced vasodynamics in rodent cortex extend arteriole capacity. | Drew PJ, Shih AY, Kleinfeld D | Proceedings of the National Academy of Sciences of the United States of America | 21536897 | Proc Natl Acad Sci U S A | 2011 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/21536897 |
| A high-resolution whole-genome map of key chromatin modifications in the adult Drosophila melanogaster. | Yin H, Sweeney S, Raha D, Snyder M, Lin H | PLoS genetics | 22194694 | PLoS Genet | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22194694 |
| Uniting germline and stem cells: the function of Piwi proteins and the piRNA pathway in diverse organisms. | Juliano C, Wang J, Lin H | Annual review of genetics | 21942366 | Annu Rev Genet | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21942366 |
| PAPI, a novel TUDOR-domain protein, complexes with AGO3, ME31B and TRAL in the nuage to silence transposition. | Liu L, Qi H, Wang J, Lin H | Development (Cambridge, England) | 21447556 | Development | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21447556 |
| The miRNA Regulation of Stem Cells. | Huang XA, Lin H | Wiley interdisciplinary reviews. Membrane transport and signaling | 23024929 | Wiley Interdiscip Rev Membr Transp Signal | 2012 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/23024929 |
| Piwi Is a Key Regulator of Both Somatic and Germline Stem Cells in the Drosophila Testis. | Gonzalez J, Qi H, Liu N, Lin H | Cell reports | 26119740 | Cell Rep | 2015 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/26119740 |
| The microRNA regulation of stem cells. | Huang XA, Lin H | Wiley interdisciplinary reviews. Developmental biology | 23801669 | Wiley Interdiscip Rev Dev Biol | 2012 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/23801669 |
| A major epigenetic programming mechanism guided by piRNAs. | Huang XA, Yin H, Sweeney S, Raha D, Snyder M, Lin H | Developmental cell | 23434410 | Dev Cell | 2013 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/23434410 |
| Reassessment of Piwi binding to the genome and Piwi impact on RNA polymerase II distribution. | Lin H, Chen M, Kundaje A, Valouev A, Yin H, Liu N, Neuenkirchen N, Zhong M, Snyder M | Developmental cell | 25805139 | Dev Cell | 2015 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/25805139 |
| The Yb body, a major site for Piwi-associated RNA biogenesis and a gateway for Piwi expression and transport to the nucleus in somatic cells. | Qi H, Watanabe T, Ku HY, Liu N, Zhong M, Lin H | The Journal of biological chemistry | 21106531 | J Biol Chem | 2011 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/21106531 |
| Stochastic facilitation of artificial tactile sensation in primates. | Medina LE, Lebedev MA, O'Doherty JE, Nicolelis MA | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23055496 | J Neurosci | 2012 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/23055496 |
| High-side digitally current controlled biphasic bipolar microstimulator. | Hanson TL, Ómarsson B, O'Doherty JE, Peikon ID, Lebedev MA, Nicolelis MA | IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society | 22328184 | IEEE Trans Neural Syst Rehabil Eng | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22328184 |
| Subcortical neuronal ensembles: an analysis of motor task association, tremor, oscillations, and synchrony in human patients. | Hanson TL, Fuller AM, Lebedev MA, Turner DA, Nicolelis MA | The Journal of neuroscience : the official journal of the Society for Neuroscience | 22723703 | J Neurosci | 2012 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/22723703 |
| Virtual active touch using randomly patterned intracortical microstimulation. | O'Doherty JE, Lebedev MA, Li Z, Nicolelis MA | IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society | 22207642 | IEEE Trans Neural Syst Rehabil Eng | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/22207642 |
| Reprogramming movements: extraction of motor intentions from cortical ensemble activity when movement goals change. | Ifft PJ, Lebedev MA, Nicolelis MA | Frontiers in neuroengineering | 22826698 | Front Neuroeng | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22826698 |
| Creating a neuroprosthesis for active tactile exploration of textures. | O'Doherty JE, Shokur S, Medina LE, Lebedev MA, Nicolelis MAL | Proceedings of the National Academy of Sciences of the United States of America | 31591224 | Proc Natl Acad Sci U S A | 2019 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/31591224 |
| Chronic, wireless recordings of large-scale brain activity in freely moving rhesus monkeys. | Schwarz DA, Lebedev MA, Hanson TL, Dimitrov DF, Lehew G, Meloy J, Rajangam S, Subramanian V, Ifft PJ, Li Z, Ramakrishnan A, Tate A, Zhuang KZ, Nicolelis MA | Nature methods | 24776634 | Nat Methods | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24776634 |
| Cortical correlates of fitts' law. | Ifft PJ, Lebedev MA, Nicolelis MA | Frontiers in integrative neuroscience | 22275888 | Front Integr Neurosci | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22275888 |
| Chronic spinal cord electrical stimulation protects against 6-hydroxydopamine lesions. | Yadav AP, Fuentes R, Zhang H, Vinholo T, Wang CH, Freire MA, Nicolelis MA | Scientific reports | 24452435 | Sci Rep | 2014 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/24452435 |
| Adaptive decoding for brain-machine interfaces through Bayesian parameter updates. | Li Z, O'Doherty JE, Lebedev MA, Nicolelis MA | Neural computation | 21919788 | Neural Comput | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21919788 |
| Active tactile exploration using a brain-machine-brain interface. | O'Doherty JE, Lebedev MA, Ifft PJ, Zhuang KZ, Shokur S, Bleuler H, Nicolelis MA | Nature | 21976021 | Nature | 2011 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/21976021 |
| Analysis of neuronal ensemble activity reveals the pitfalls and shortcomings of rotation dynamics. | Lebedev MA, Ossadtchi A, Mill NA, Urpí NA, Cervera MR, Nicolelis MAL | Scientific reports | 31831758 | Sci Rep | 2019 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/31831758 |
| A Brain to Spine Interface for Transferring Artificial Sensory Information. | Yadav AP, Li D, Nicolelis MAL | Scientific reports | 31964948 | Sci Rep | 2020 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/31964948 |
| Rapamycin-inspired macrocycles with new target specificity. | Guo Z, Hong SY, Wang J, Rehan S, Liu W, Peng H, Das M, Li W, Bhat S, Peiffer B, Ullman BR, Tse CM, Tarmakova Z, Schiene-Fischer C, Fischer G, Coe I, Paavilainen VO, Sun Z, Liu JO | Nature chemistry | 30532015 | Nat Chem | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30532015 |
| A simple and efficient route to the FKBP-binding domain from rapamycin. | Li W, Bhat S, Liu JO | Tetrahedron letters | 21894238 | Tetrahedron Lett | 2011 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/21894238 |
| Mycobacteria manipulate macrophage recruitment through coordinated use of membrane lipids. | Cambier CJ, Takaki KK, Larson RP, Hernandez RE, Tobin DM, Urdahl KB, Cosma CL, Ramakrishnan L | Nature | 24336213 | Nature | 2014 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/24336213 |
| Computer-Assisted Transgenesis of Caenorhabditis elegans for Deep Phenotyping. | Gilleland CL, Falls AT, Noraky J, Heiman MG, Yanik MF | Genetics | 26163188 | Genetics | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26163188 |
| Combinatorial programming of human neuronal progenitors using magnetically-guided stoichiometric mRNA delivery. | Azimi SM, Sheridan SD, Ghannad-Rezaie M, Eimon PM, Yanik MF | eLife | 29714688 | Elife | 2018 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/29714688 |
| TNF dually mediates resistance and susceptibility to mycobacteria via mitochondrial reactive oxygen species. | Roca FJ, Ramakrishnan L | Cell | 23582643 | Cell | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23582643 |
| Evaluation of the pathogenesis and treatment of Mycobacterium marinum infection in zebrafish. | Takaki K, Davis JM, Winglee K, Ramakrishnan L | Nature protocols | 23680983 | Nat Protoc | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23680983 |
| Verapamil, and its metabolite norverapamil, inhibit macrophage-induced, bacterial efflux pump-mediated tolerance to multiple anti-tubercular drugs. | Adams KN, Szumowski JD, Ramakrishnan L | The Journal of infectious diseases | 24532601 | J Infect Dis | 2014 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/24532601 |
| Strategic protein target analysis for developing drugs to stop dental caries. | Horst JA, Pieper U, Sali A, Zhan L, Chopra G, Samudrala R, Featherstone JD | Advances in dental research | 22899687 | Adv Dent Res | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22899687 |
| LoCo: a novel main chain scoring function for protein structure prediction based on local coordinates. | Moughon SE, Samudrala R | BMC bioinformatics | 21920038 | BMC Bioinformatics | 2011 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/21920038 |
| CANDOCK: Chemical Atomic Network-Based Hierarchical Flexible Docking Algorithm Using Generalized Statistical Potentials. | Fine J, Konc J, Samudrala R, Chopra G | Journal of chemical information and modeling | 32069042 | J Chem Inf Model | 2020 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/32069042 |
| cando.py: Open Source Software for Predictive Bioanalytics of Large Scale Drug-Protein-Disease Data. | Mangione W, Falls Z, Chopra G, Samudrala R | Journal of chemical information and modeling | 32515949 | J Chem Inf Model | 2020 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/32515949 |
| Multiscale Analysis and Validation of Effective Drug Combinations Targeting Driver KRAS Mutations in Non-Small Cell Lung Cancer. | Bruggemann L, Falls Z, Mangione W, Schwartz SA, Battaglia S, Aalinkeel R, Mahajan SD, Samudrala R | International journal of molecular sciences | 36674513 | Int J Mol Sci | 2023 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/36674513 |
| Optimal COVID-19 therapeutic candidate discovery using the CANDO platform. | Mangione W, Falls Z, Samudrala R | Frontiers in pharmacology | 36091793 | Front Pharmacol | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36091793 |
| Antiviral Approaches against Influenza Virus. | Kumari R, Sharma SD, Kumar A, Ende Z, Mishina M, Wang Y, Falls Z, Samudrala R, Pohl J, Knight PR, Sambhara S | Clinical microbiology reviews | 36645300 | Clin Microbiol Rev | 2023 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/36645300 |
| A Deep-Learning Proteomic-Scale Approach for Drug Design. | Overhoff B, Falls Z, Mangione W, Samudrala R | Pharmaceuticals (Basel, Switzerland) | 34959678 | Pharmaceuticals (Basel) | 2021 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/34959678 |
| The Promise and Challenge of Digital Biology. | Minie ME, Samudrala R | Journal of bioengineering & biomedical science | 30338132 | J Bioeng Biomed Sci | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/30338132 |
| The enzymatic and metabolic capabilities of early life. | Goldman AD, Baross JA, Samudrala R | PloS one | 22970111 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22970111 |
| Exploration of interaction scoring criteria in the CANDO platform. | Falls Z, Mangione W, Schuler J, Samudrala R | BMC research notes | 31174591 | BMC Res Notes | 2019 Jun 7 | https://www.ncbi.nlm.nih.gov/pubmed/31174591 |
| Rv0100, a proposed acyl carrier protein in Mycobacterium tuberculosis: expression, purification and crystallization. Corrigendum. | Bondoc JMG, Gutka HJ, Almutairi MM, Patwell R, Rutter MW, Wolf NM, Samudrala R, Mehboob S, Dementiev A, Abad-Zapatero C, Movahedzadeh F | Acta crystallographica. Section F, Structural biology communications | 32254053 | Acta Crystallogr F Struct Biol Commun | 2020 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/32254053 |
| Multiscale Virtual Screening Optimization for Shotgun Drug Repurposing Using the CANDO Platform. | Hudson ML, Samudrala R | Molecules (Basel, Switzerland) | 33925237 | Molecules | 2021 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/33925237 |
| Shotgun drug repurposing biotechnology to tackle epidemics and pandemics. | Mangione W, Falls Z, Melendy T, Chopra G, Samudrala R | ChemRxiv : the preprint server for chemistry | 32511286 | ChemRxiv | 2020 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/32511286 |
| Association of C>U RNA Editing with Human Disease Variants. | Mandloi S, Falls Z, Deng R, Samudrala R, Elkin PL | Studies in health technology and informatics | 32570581 | Stud Health Technol Inform | 2020 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/32570581 |
| Linking Genome and Exposome: Computational Analysis of Human Variation in Chemical-Target Interactions. | Bruggemann L, Hawthorne C, Samudrala R, Lopez-Campos GH | Studies in health technology and informatics | 32570644 | Stud Health Technol Inform | 2020 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/32570644 |
| Shotgun drug repurposing biotechnology to tackle epidemics and pandemics. | Mangione W, Falls Z, Melendy T, Chopra G, Samudrala R | Drug discovery today | 32405249 | Drug Discov Today | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32405249 |
| Computational Grafting of Epitopes. | Manish M, Mishra S, Pahuja M, Anand A, Subbarao N, Samudrala R | Methods in molecular biology (Clifton, N.J.) | 37258909 | Methods Mol Biol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37258909 |
| Self-assembly of filamentous amelogenin requires calcium and phosphate: from dimers via nanoribbons to fibrils. | Martinez-Avila O, Wu S, Kim SJ, Cheng Y, Khan F, Samudrala R, Sali A, Horst JA, Habelitz S | Biomacromolecules | 22974364 | Biomacromolecules | 2012 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/22974364 |
| Identifying Protein Features Responsible for Improved Drug Repurposing Accuracies Using the CANDO Platform: Implications for Drug Design. | Mangione W, Samudrala R | Molecules (Basel, Switzerland) | 30621144 | Molecules | 2019 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/30621144 |
| Exploring Polypharmacology in Drug Discovery and Repurposing Using the CANDO Platform. | Chopra G, Samudrala R | Current pharmaceutical design | 27013226 | Curr Pharm Des | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27013226 |
| CANDO and the infinite drug discovery frontier. | Minie M, Chopra G, Sethi G, Horst J, White G, Roy A, Hatti K, Samudrala R | Drug discovery today | 24980786 | Drug Discov Today | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/24980786 |
| Structure prediction of partial-length protein sequences. | Laurenzi A, Hung LH, Samudrala R | International journal of molecular sciences | 23867606 | Int J Mol Sci | 2013 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/23867606 |
| Multiscale modelling of relationships between protein classes and drug behavior across all diseases using the CANDO platform. | Sethi G, Chopra G, Samudrala R | Mini reviews in medicinal chemistry | 25694071 | Mini Rev Med Chem | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25694071 |
| Fingerprinting CANDO: Increased Accuracy with Structure- and Ligand-Based Shotgun Drug Repurposing. | Schuler J, Samudrala R | ACS omega | 31656912 | ACS Omega | 2019 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/31656912 |
| Protein mimetic amyloid inhibitor potently abrogates cancer-associated mutant p53 aggregation and restores tumor suppressor function. | Palanikumar L, Karpauskaite L, Al-Sayegh M, Chehade I, Alam M, Hassan S, Maity D, Ali L, Kalmouni M, Hunashal Y, Ahmed J, Houhou T, Karapetyan S, Falls Z, Samudrala R, Pasricha R, Esposito G, Afzal AJ, Hamilton AD, Kumar S, Magzoub M | Nature communications | 34172723 | Nat Commun | 2021 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/34172723 |
| Rv0100, a proposed acyl carrier protein in Mycobacterium tuberculosis: expression, purification and crystallization. | Bondoc JMG, Gutka HJ, Almutairi MM, Patwell R, Rutter MW, Wolf NM, Samudrala R, Mehboob S, Movahedzadeh F | Acta crystallographica. Section F, Structural biology communications | 31584013 | Acta Crystallogr F Struct Biol Commun | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/31584013 |
| A fluorescence-based, gain-of-signal, live cell system to evaluate SARS-CoV-2 main protease inhibition. | Dey-Rao R, Smith GR, Timilsina U, Falls Z, Samudrala R, Stavrou S, Melendy T | Antiviral research | 34626674 | Antiviral Res | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34626674 |
| Accurate Prediction of Inhibitor Binding to HIV-1 Protease Using CANDOCK. | Falls Z, Fine J, Chopra G, Samudrala R | Frontiers in chemistry | 35111726 | Front Chem | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/35111726 |
| Identifying Protein Features and Pathways Responsible for Toxicity Using Machine Learning and Tox21: Implications for Predictive Toxicology. | Moukheiber L, Mangione W, Moukheiber M, Maleki S, Falls Z, Gao M, Samudrala R | Molecules (Basel, Switzerland) | 35566372 | Molecules | 2022 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/35566372 |
| Proteomic Network Analysis of Bronchoalveolar Lavage Fluid in Ex-Smokers to Discover Implicated Protein Targets and Novel Drug Treatments for Chronic Obstructive Pulmonary Disease. | Mammen MJ, Tu C, Morris MC, Richman S, Mangione W, Falls Z, Qu J, Broderick G, Sethi S, Samudrala R | Pharmaceuticals (Basel, Switzerland) | 35631392 | Pharmaceuticals (Basel) | 2022 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/35631392 |
| Combating Ebola with Repurposed Therapeutics Using the CANDO Platform. | Chopra G, Kaushik S, Elkin PL, Samudrala R | Molecules (Basel, Switzerland) | 27898018 | Molecules | 2016 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/27898018 |
| Accelerated protein structure comparison using TM-score-GPU. | Hung LH, Samudrala R | Bioinformatics (Oxford, England) | 22718788 | Bioinformatics | 2012 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/22718788 |
| Cementomimetics-constructing a cementum-like biomineralized microlayer via amelogenin-derived peptides. | Gungormus M, Oren EE, Horst JA, Fong H, Hnilova M, Somerman MJ, Snead ML, Samudrala R, Tamerler C, Sarikaya M | International journal of oral science | 22743342 | Int J Oral Sci | 2012 Jun | https://www.ncbi.nlm.nih.gov/pubmed/22743342 |
| Homo-dimerization and ligand binding by the leucine-rich repeat domain at RHG1/RFS2 underlying resistance to two soybean pathogens. | Afzal AJ, Srour A, Goil A, Vasudaven S, Liu T, Samudrala R, Dogra N, Kohli P, Malakar A, Lightfoot DA | BMC plant biology | 23497186 | BMC Plant Biol | 2013 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/23497186 |
| A synthetic small molecule stalls pre-mRNA splicing by promoting an early-stage U2AF2-RNA complex. | Chatrikhi R, Feeney CF, Pulvino MJ, Alachouzos G, MacRae AJ, Falls Z, Rai S, Brennessel WW, Jenkins JL, Walter MJ, Graubert TA, Samudrala R, Jurica MS, Frontier AJ, Kielkopf CL | Cell chemical biology | 33689684 | Cell Chem Biol | 2021 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/33689684 |
| A Systematic Review of Computational Drug Discovery, Development, and Repurposing for Ebola Virus Disease Treatment. | Schuler J, Hudson ML, Schwartz D, Samudrala R | Molecules (Basel, Switzerland) | 29053626 | Molecules | 2017 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/29053626 |
| Computational chemoproteomics to understand the role of selected psychoactives in treating mental health indications. | Fine J, Lackner R, Samudrala R, Chopra G | Scientific reports | 31511563 | Sci Rep | 2019 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/31511563 |
| Evaluating the performance of drug-repurposing technologies. | Schuler J, Falls Z, Mangione W, Hudson ML, Bruggemann L, Samudrala R | Drug discovery today | 34400352 | Drug Discov Today | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34400352 |
| The impact of nucleosome structure on CRISPR/Cas9 fidelity. | Handelmann CR, Tsompana M, Samudrala R, Buck MJ | Nucleic acids research | 36727449 | Nucleic Acids Res | 2023 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/36727449 |
| Strategies for robust, accurate, and generalizable benchmarking of drug discovery platforms. | Van Norden M, Mangione W, Falls Z, Samudrala R | bioRxiv : the preprint server for biology | 39764006 | bioRxiv | 2024 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/39764006 |
| Multiscale analysis and optimal glioma therapeutic candidate discovery using the CANDO platform. | Xu S, Mangione W, Van Norden M, Elefteriou K, Hu Y, Falls Z, Samudrala R | bioRxiv : the preprint server for biology | 40475540 | bioRxiv | 2025 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/40475540 |
| Obesity-susceptibility loci and the tails of the pediatric BMI distribution. | Mitchell JA, Hakonarson H, Rebbeck TR, Grant SF | Obesity (Silver Spring, Md.) | 23408508 | Obesity (Silver Spring) | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23408508 |
| Recent human adaptation: genomic approaches, interpretation and insights. | Scheinfeldt LB, Tishkoff SA | Nature reviews. Genetics | 24052086 | Nat Rev Genet | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24052086 |
| Characterization of genetic variation and natural selection at the arylamine N-acetyltransferase genes in global human populations. | Mortensen HM, Froment A, Lema G, Bodo JM, Ibrahim M, Nyambo TB, Omar SA, Tishkoff SA | Pharmacogenomics | 21995608 | Pharmacogenomics | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21995608 |
| Haplotype variation and genotype imputation in African populations. | Huang L, Jakobsson M, Pemberton TJ, Ibrahim M, Nyambo T, Omar S, Pritchard JK, Tishkoff SA, Rosenberg NA | Genetic epidemiology | 22125220 | Genet Epidemiol | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22125220 |
| Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies. | Jarvis JP, Scheinfeldt LB, Soi S, Lambert C, Omberg L, Ferwerda B, Froment A, Bodo JM, Beggs W, Hoffman G, Mezey J, Tishkoff SA | PLoS genetics | 22570615 | PLoS Genet | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22570615 |
| Living the high life: high-altitude adaptation. | Scheinfeldt LB, Tishkoff SA | Genome biology | 20979669 | Genome Biol | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/20979669 |
| Rapidly-dissolvable microneedle patches via a highly scalable and reproducible soft lithography approach. | Moga KA, Bickford LR, Geil RD, Dunn SS, Pandya AA, Wang Y, Fain JH, Archuleta CF, O'Neill AT, Desimone JM | Advanced materials (Deerfield Beach, Fla.) | 23893866 | Adv Mater | 2013 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/23893866 |
| More effective nanomedicines through particle design. | Wang J, Byrne JD, Napier ME, DeSimone JM | Small (Weinheim an der Bergstrasse, Germany) | 21695781 | Small | 2011 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/21695781 |
| New insights into immunomodulation via overexpressing lipoic acid synthase as a therapeutic potential to reduce atherosclerosis. | Tian S, Nakamura J, Hiller S, Simington S, Holley DW, Mota R, Willis MS, Bultman SJ, Luft JC, DeSimone JM, Jia Z, Maeda N, Yi X | Vascular pharmacology | 32750408 | Vascul Pharmacol | 2020 Oct-Nov | https://www.ncbi.nlm.nih.gov/pubmed/32750408 |
| Distribution and Cellular Uptake of PEGylated Polymeric Particles in the Lung Towards Cell-Specific Targeted Delivery. | Shen TW, Fromen CA, Kai MP, Luft JC, Rahhal TB, Robbins GR, DeSimone JM | Pharmaceutical research | 26002743 | Pharm Res | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26002743 |
| Controlled analysis of nanoparticle charge on mucosal and systemic antibody responses following pulmonary immunization. | Fromen CA, Robbins GR, Shen TW, Kai MP, Ting JP, DeSimone JM | Proceedings of the National Academy of Sciences of the United States of America | 25548169 | Proc Natl Acad Sci U S A | 2015 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/25548169 |
| Effect of aspect ratio and deformability on nanoparticle extravasation through nanopores. | Kersey FR, Merkel TJ, Perry JL, Napier ME, DeSimone JM | Langmuir : the ACS journal of surfaces and colloids | 22612428 | Langmuir | 2012 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/22612428 |
| Tunable bifunctional silyl ether cross-linkers for the design of acid-sensitive biomaterials. | Parrott MC, Luft JC, Byrne JD, Fain JH, Napier ME, Desimone JM | Journal of the American Chemical Society | 21105720 | J Am Chem Soc | 2010 Dec 22 | https://www.ncbi.nlm.nih.gov/pubmed/21105720 |
| Engineering nanomedicines using stimuli-responsive biomaterials. | Wang Y, Byrne JD, Napier ME, DeSimone JM | Advanced drug delivery reviews | 22266128 | Adv Drug Deliv Rev | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22266128 |
| Reductively responsive siRNA-conjugated hydrogel nanoparticles for gene silencing. | Dunn SS, Tian S, Blake S, Wang J, Galloway AL, Murphy A, Pohlhaus PD, Rolland JP, Napier ME, DeSimone JM | Journal of the American Chemical Society | 22475061 | J Am Chem Soc | 2012 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/22475061 |
| RNA replicon delivery via lipid-complexed PRINT protein particles. | Xu J, Luft JC, Yi X, Tian S, Owens G, Wang J, Johnson A, Berglund P, Smith J, Napier ME, DeSimone JM | Molecular pharmaceutics | 23924216 | Mol Pharm | 2013 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/23924216 |
| Tumor Presence Induces Global Immune Changes and Enhances Nanoparticle Clearance. | Kai MP, Brighton HE, Fromen CA, Shen TW, Luft JC, Luft YE, Keeler AW, Robbins GR, Ting JP, Zamboni WC, Bear JE, DeSimone JM | ACS nano | 26592524 | ACS Nano | 2016 Jan 26 | https://www.ncbi.nlm.nih.gov/pubmed/26592524 |
| Subtumoral analysis of PRINT nanoparticle distribution reveals targeting variation based on cellular and particle properties. | Roode LE, Brighton H, Bo T, Perry JL, Parrott MC, Kersey F, Luft JC, Bear JE, DeSimone JM, Davis IJ | Nanomedicine : nanotechnology, biology, and medicine | 26772430 | Nanomedicine | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26772430 |
| Future of the particle replication in nonwetting templates (PRINT) technology. | Xu J, Wong DH, Byrne JD, Chen K, Bowerman C, DeSimone JM | Angewandte Chemie (International ed. in English) | 23670869 | Angew Chem Int Ed Engl | 2013 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/23670869 |
| Dodging drug-resistant cancer with diamonds. | Merkel TJ, DeSimone JM | Science translational medicine | 21389261 | Sci Transl Med | 2011 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/21389261 |
| Generating Better Medicines for Cancer. | Dunn SS, Byrne JD, Perry JL, Chen K, Desimone JM | ACS macro letters | 23772351 | ACS Macro Lett | 2013 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/23772351 |
| Retinoic Acid-Loaded Poly(lactic-co-glycolic acid) Nanoparticle Formulation of ApoB-100-Derived Peptide 210 Attenuates Atherosclerosis. | Yi X, Wang Y, Jia Z, Hiller S, Nakamura J, Luft JC, Tian S, DeSimone JM | Journal of biomedical nanotechnology | 32970979 | J Biomed Nanotechnol | 2020 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/32970979 |
| Organic Polymer Chemistry in the Context of Novel Processes. | DeSimone JM, Mecham SJ, Farrell CL | ACS central science | 27725955 | ACS Cent Sci | 2016 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/27725955 |
| Nanoparticle surface charge impacts distribution, uptake and lymph node trafficking by pulmonary antigen-presenting cells. | Fromen CA, Rahhal TB, Robbins GR, Kai MP, Shen TW, Luft JC, DeSimone JM | Nanomedicine : nanotechnology, biology, and medicine | 26656533 | Nanomedicine | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26656533 |
| Local iontophoretic administration of cytotoxic therapies to solid tumors. | Byrne JD, Jajja MR, O'Neill AT, Bickford LR, Keeler AW, Hyder N, Wagner K, Deal A, Little RE, Moffitt RA, Stack C, Nelson M, Brooks CR, Lee W, Luft JC, Napier ME, Darr D, Anders CK, Stack R, Tepper JE, Wang AZ, Zamboni WC, Yeh JJ, DeSimone JM | Science translational medicine | 25653220 | Sci Transl Med | 2015 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/25653220 |
| Rendering protein-based particles transiently insoluble for therapeutic applications. | Xu J, Wang J, Luft JC, Tian S, Owens G Jr, Pandya AA, Berglund P, Pohlhaus P, Maynor BW, Smith J, Hubby B, Napier ME, DeSimone JM | Journal of the American Chemical Society | 22568387 | J Am Chem Soc | 2012 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/22568387 |
| Stem cells in veterinary medicine. | Fortier LA, Travis AJ | Stem cell research & therapy | 21371354 | Stem Cell Res Ther | 2011 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/21371354 |
| Phospholipase B is activated in response to sterol removal and stimulates acrosome exocytosis in murine sperm. | Asano A, Nelson-Harrington JL, Travis AJ | The Journal of biological chemistry | 23943622 | J Biol Chem | 2013 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/23943622 |
| Use of Tethered Enzymes as a Platform Technology for Rapid Analyte Detection. | Cohen R, Lata JP, Lee Y, Hernández JC, Nishimura N, Schaffer CB, Mukai C, Nelson JL, Brangman SA, Agrawal Y, Travis AJ | PloS one | 26605916 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26605916 |
| Activation of actin-cardiac myosin subfragment 1 MgATPase rate by Ca2+ shows cooperativity intrinsic to the thin filament. | Tobacman LS | Biochemistry | 2950924 | Biochemistry | 1987 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/2950924 |
| Characterization of the proteomes associating with three distinct membrane raft sub-types in murine sperm. | Asano A, Nelson JL, Zhang S, Travis AJ | Proteomics | 20815087 | Proteomics | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20815087 |
| What sperm can teach us about energy production. | Mukai C, Travis AJ | Reproduction in domestic animals = Zuchthygiene | 22827366 | Reprod Domest Anim | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22827366 |
| Anti-Müllerian Hormone in the Domestic Dog during the Anestrus to Oestrous Transition. | Nagashima JB, Hansen BS, Songsasen N, Travis AJ, Place NJ | Reproduction in domestic animals = Zuchthygiene | 26708613 | Reprod Domest Anim | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26708613 |
| Cysteine dioxygenase is essential for mouse sperm osmoadaptation and male fertility. | Asano A, Roman HB, Hirschberger LL, Ushiyama A, Nelson JL, Hinchman MM, Stipanuk MH, Travis AJ | The FEBS journal | 29604178 | FEBS J | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29604178 |
| Lipid modulation of calcium flux through CaV2.3 regulates acrosome exocytosis and fertilization. | Cohen R, Buttke DE, Asano A, Mukai C, Nelson JL, Ren D, Miller RJ, Cohen-Kutner M, Atlas D, Travis AJ | Developmental cell | 24525187 | Dev Cell | 2014 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/24525187 |
| Tetraspanin 3 Is Required for the Development and Propagation of Acute Myelogenous Leukemia. | Kwon HY, Bajaj J, Ito T, Blevins A, Konuma T, Weeks J, Lytle NK, Koechlein CS, Rizzieri D, Chuah C, Oehler VG, Sasik R, Hardiman G, Reya T | Cell stem cell | 26212080 | Cell Stem Cell | 2015 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/26212080 |
| Lis1 regulates asymmetric division in hematopoietic stem cells and in leukemia. | Zimdahl B, Ito T, Blevins A, Bajaj J, Konuma T, Weeks J, Koechlein CS, Kwon HY, Arami O, Rizzieri D, Broome HE, Chuah C, Oehler VG, Sasik R, Hardiman G, Reya T | Nature genetics | 24487275 | Nat Genet | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24487275 |
| Regulation of myeloid leukaemia by the cell-fate determinant Musashi. | Ito T, Kwon HY, Zimdahl B, Congdon KL, Blum J, Lento WE, Zhao C, Lagoo A, Gerrard G, Foroni L, Goldman J, Goh H, Kim SH, Kim DW, Chuah C, Oehler VG, Radich JP, Jordan CT, Reya T | Nature | 20639863 | Nature | 2010 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/20639863 |
| High-resolution imaging and computational analysis of haematopoietic cell dynamics in vivo. | Koechlein CS, Harris JR, Lee TK, Weeks J, Fox RG, Zimdahl B, Ito T, Blevins A, Jung SH, Chute JP, Chourasia A, Covert MW, Reya T | Nature communications | 27425143 | Nat Commun | 2016 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/27425143 |
| Ubiquitin-conjugating enzyme Ubc13 controls breast cancer metastasis through a TAK1-p38 MAP kinase cascade. | Wu X, Zhang W, Font-Burgada J, Palmer T, Hamil AS, Biswas SK, Poidinger M, Borcherding N, Xie Q, Ellies LG, Lytle NK, Wu LW, Fox RG, Yang J, Dowdy SF, Reya T, Karin M | Proceedings of the National Academy of Sciences of the United States of America | 25189770 | Proc Natl Acad Sci U S A | 2014 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/25189770 |
| Loss of β-catenin triggers oxidative stress and impairs hematopoietic regeneration. | Lento W, Ito T, Zhao C, Harris JR, Huang W, Jiang C, Owzar K, Piryani S, Racioppi L, Chao N, Reya T | Genes & development | 24788518 | Genes Dev | 2014 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/24788518 |
| Microbiology. Antibiotic resistance, not shaken or stirred. | Frisch RL, Rosenberg SM | Science (New York, N.Y.) | 21940884 | Science | 2011 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/21940884 |
| Muscle acetylcholine receptor biosynthesis. Regulation by transcript availability. | Evans S, Goldman D, Heinemann S, Patrick J | The Journal of biological chemistry | 2435720 | J Biol Chem | 1987 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/2435720 |
| Expression of the hyperpolarization-activated cyclic nucleotide-gated cation channel HCN4 during mouse heart development. | Garcia-Frigola C, Shi Y, Evans SM | Gene expression patterns : GEP | 14643687 | Gene Expr Patterns | 2003 Dec | https://www.ncbi.nlm.nih.gov/pubmed/14643687 |
| To activate or not to activate: the existential dilemma of an enhancer. | Boogerd CJ, Evans SM | Circulation research | 23538274 | Circ Res | 2013 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/23538274 |
| HCN4 dynamically marks the first heart field and conduction system precursors. | Liang X, Wang G, Lin L, Lowe J, Zhang Q, Bu L, Chen Y, Chen J, Sun Y, Evans SM | Circulation research | 23743334 | Circ Res | 2013 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/23743334 |
| Retinoic acid signaling regulates sonic hedgehog and bone morphogenetic protein signalings during genital tubercle development. | Liu L, Suzuki K, Nakagata N, Mihara K, Matsumaru D, Ogino Y, Yashiro K, Hamada H, Liu Z, Evans SM, Mendelsohn C, Yamada G | Birth defects research. Part B, Developmental and reproductive toxicology | 22127979 | Birth Defects Res B Dev Reprod Toxicol | 2012 Feb | https://www.ncbi.nlm.nih.gov/pubmed/22127979 |
| Myocardial lineage development. | Evans SM, Yelon D, Conlon FL, Kirby ML | Circulation research | 21148449 | Circ Res | 2010 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/21148449 |
| Isl1 identifies a cardiac progenitor population that proliferates prior to differentiation and contributes a majority of cells to the heart. | Cai CL, Liang X, Shi Y, Chu PH, Pfaff SL, Chen J, Evans S | Developmental cell | 14667410 | Dev Cell | 2003 Dec | https://www.ncbi.nlm.nih.gov/pubmed/14667410 |
| Localization of Islet-1-positive cells in the healthy and infarcted adult murine heart. | Weinberger F, Mehrkens D, Friedrich FW, Stubbendorff M, Hua X, Müller JC, Schrepfer S, Evans SM, Carrier L, Eschenhagen T | Circulation research | 22427341 | Circ Res | 2012 May 11 | https://www.ncbi.nlm.nih.gov/pubmed/22427341 |
| Redox Paradox: Can Hypoxia Heal Ischemic Hearts? | Guimarães-Camboa N, Evans SM | Developmental cell | 27875683 | Dev Cell | 2016 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/27875683 |
| Development of the cardiac pacemaker. | Liang X, Evans SM, Sun Y | Cellular and molecular life sciences : CMLS | 27770149 | Cell Mol Life Sci | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27770149 |
| IL-11 is a crucial determinant of cardiovascular fibrosis. | Schafer S, Viswanathan S, Widjaja AA, Lim WW, Moreno-Moral A, DeLaughter DM, Ng B, Patone G, Chow K, Khin E, Tan J, Chothani SP, Ye L, Rackham OJL, Ko NSJ, Sahib NE, Pua CJ, Zhen NTG, Xie C, Wang M, Maatz H, Lim S, Saar K, Blachut S, Petretto E, Schmidt S, Putoczki T, Guimarães-Camboa N, Wakimoto H, van Heesch S, Sigmundsson K, Lim SL, Soon JL, Chao VTT, Chua YL, Tan TE, Evans SM, Loh YJ, Jamal MH, Ong KK, Chua KC, Ong BH, Chakaramakkil MJ, Seidman JG, Seidman CE, Hubner N, Sin KYK, Cook SA | Nature | 29160304 | Nature | 2017 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/29160304 |
| Infarct Fibroblasts Do Not Derive From Bone Marrow Lineages. | Moore-Morris T, Cattaneo P, Guimarães-Camboa N, Bogomolovas J, Cedenilla M, Banerjee I, Ricote M, Kisseleva T, Zhang L, Gu Y, Dalton ND, Peterson KL, Chen J, Pucéat M, Evans SM | Circulation research | 29269349 | Circ Res | 2018 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/29269349 |
| Cardiac fibroblasts: from development to heart failure. | Moore-Morris T, Guimarães-Camboa N, Yutzey KE, Pucéat M, Evans SM | Journal of molecular medicine (Berlin, Germany) | 26169532 | J Mol Med (Berl) | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26169532 |
| Isl1Cre reveals a common Bmp pathway in heart and limb development. | Yang L, Cai CL, Lin L, Qyang Y, Chung C, Monteiro RM, Mummery CL, Fishman GI, Cogen A, Evans S | Development (Cambridge, England) | 16556916 | Development | 2006 Apr | https://www.ncbi.nlm.nih.gov/pubmed/16556916 |
| Pitx2 regulates cardiac left-right asymmetry by patterning second cardiac lineage-derived myocardium. | Ai D, Liu W, Ma L, Dong F, Lu MF, Wang D, Verzi MP, Cai C, Gage PJ, Evans S, Black BL, Brown NA, Martin JF | Developmental biology | 16836994 | Dev Biol | 2006 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/16836994 |
| Islet1 regulates establishment of the posterior hindlimb field upstream of the Hand2-Shh morphoregulatory gene network in mouse embryos. | Itou J, Kawakami H, Quach T, Osterwalder M, Evans SM, Zeller R, Kawakami Y | Development (Cambridge, England) | 22438573 | Development | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22438573 |
| Pericytes of Multiple Organs Do Not Behave as Mesenchymal Stem Cells In Vivo. | Guimarães-Camboa N, Cattaneo P, Sun Y, Moore-Morris T, Gu Y, Dalton ND, Rockenstein E, Masliah E, Peterson KL, Stallcup WB, Chen J, Evans SM | Cell stem cell | 28111199 | Cell Stem Cell | 2017 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/28111199 |
| Revisiting Preadolescent Cardiomyocyte Proliferation in Mice. | Hirai M, Cattaneo P, Chen J, Evans SM | Circulation research | 26987912 | Circ Res | 2016 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/26987912 |
| Smooth muscle origin of postnatal 2nd CVP is pre-determined in early embryo. | Liu Q, Zhang H, Tian X, He L, Huang X, Tan Z, Yan Y, Evans SM, Wythe JD, Zhou B | Biochemical and biophysical research communications | 26902114 | Biochem Biophys Res Commun | 2016 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/26902114 |
| Tissue-Specific Cell Cycle Indicator Reveals Unexpected Findings for Cardiac Myocyte Proliferation. | Hirai M, Chen J, Evans SM | Circulation research | 26472817 | Circ Res | 2016 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/26472817 |
| HIF1α Represses Cell Stress Pathways to Allow Proliferation of Hypoxic Fetal Cardiomyocytes. | Guimarães-Camboa N, Stowe J, Aneas I, Sakabe N, Cattaneo P, Henderson L, Kilberg MS, Johnson RS, Chen J, McCulloch AD, Nobrega MA, Evans SM, Zambon AC | Developmental cell | 26028220 | Dev Cell | 2015 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/26028220 |
| Expression of Isl1 during mouse development. | Zhuang S, Zhang Q, Zhuang T, Evans SM, Liang X, Sun Y | Gene expression patterns : GEP | 23906961 | Gene Expr Patterns | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23906961 |
| Insights into cardiac conduction system formation provided by HCN4 expression. | Liang X, Evans SM, Sun Y | Trends in cardiovascular medicine | 25442735 | Trends Cardiovasc Med | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25442735 |
| Postnatal isl1+ cardioblasts enter fully differentiated cardiomyocyte lineages. | Laugwitz KL, Moretti A, Lam J, Gruber P, Chen Y, Woodard S, Lin LZ, Cai CL, Lu MM, Reth M, Platoshyn O, Yuan JX, Evans S, Chien KR | Nature | 15703750 | Nature | 2005 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/15703750 |
| Pinch1 is required for normal development of cranial and cardiac neural crest-derived structures. | Liang X, Sun Y, Schneider J, Ding JH, Cheng H, Ye M, Bhattacharya S, Rearden A, Evans S, Chen J | Circulation research | 17272814 | Circ Res | 2007 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/17272814 |
| Modulation of morphogenesis by noncanonical Wnt signaling requires ATF/CREB family-mediated transcriptional activation of TGFbeta2. | Zhou W, Lin L, Majumdar A, Li X, Zhang X, Liu W, Etheridge L, Shi Y, Martin J, Van de Ven W, Kaartinen V, Wynshaw-Boris A, McMahon AP, Rosenfeld MG, Evans SM | Nature genetics | 17767158 | Nat Genet | 2007 Oct | https://www.ncbi.nlm.nih.gov/pubmed/17767158 |
| The contribution of Islet1-expressing splanchnic mesoderm cells to distinct branchiomeric muscles reveals significant heterogeneity in head muscle development. | Nathan E, Monovich A, Tirosh-Finkel L, Harrelson Z, Rousso T, Rinon A, Harel I, Evans SM, Tzahor E | Development (Cambridge, England) | 18184728 | Development | 2008 Feb | https://www.ncbi.nlm.nih.gov/pubmed/18184728 |
| Tissue specific requirements for WNT11 in developing outflow tract and dorsal mesenchymal protrusion. | van Vliet PP, Lin L, Boogerd CJ, Martin JF, Andelfinger G, Grossfeld PD, Evans SM | Developmental biology | 28669819 | Dev Biol | 2017 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/28669819 |
| Promoter activity and transcript mapping in the regulatory region for genes encoding ribosomal protein S15 and polynucleotide phosphorylase of Escherichia coli. | Evans S, Dennis PP | Gene | 3005122 | Gene | 1985 | https://www.ncbi.nlm.nih.gov/pubmed/3005122 |
| T-box genes coordinate regional rates of proliferation and regional specification during cardiogenesis. | Cai CL, Zhou W, Yang L, Bu L, Qyang Y, Zhang X, Li X, Rosenfeld MG, Chen J, Evans S | Development (Cambridge, England) | 15843407 | Development | 2005 May | https://www.ncbi.nlm.nih.gov/pubmed/15843407 |
| T-Box transcription factor Tbx20 regulates a genetic program for cranial motor neuron cell body migration. | Song MR, Shirasaki R, Cai CL, Ruiz EC, Evans SM, Lee SK, Pfaff SL | Development (Cambridge, England) | 17119020 | Development | 2006 Dec | https://www.ncbi.nlm.nih.gov/pubmed/17119020 |
| Are Perivascular Adipocyte Progenitors Mural Cells or Adventitial Fibroblasts? | Guimarães-Camboa N, Evans SM | Cell stem cell | 28475883 | Cell Stem Cell | 2017 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/28475883 |
| A myocardial lineage derives from Tbx18 epicardial cells. | Cai CL, Martin JC, Sun Y, Cui L, Wang L, Ouyang K, Yang L, Bu L, Liang X, Zhang X, Stallcup WB, Denton CP, McCulloch A, Chen J, Evans SM | Nature | 18480752 | Nature | 2008 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/18480752 |
| MicroRNAs in a cardiac loop: progenitor or myocyte? | Evans SM, Moretti A, Laugwitz KL | Developmental cell | 21145492 | Dev Cell | 2010 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/21145492 |
| Modular genetic control of sexually dimorphic behaviors. | Xu X, Coats JK, Yang CF, Wang A, Ahmed OM, Alvarado M, Izumi T, Shah NM | Cell | 22304924 | Cell | 2012 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/22304924 |
| Restriction of transient receptor potential vanilloid-1 to the peptidergic subset of primary afferent neurons follows its developmental downregulation in nonpeptidergic neurons. | Cavanaugh DJ, Chesler AT, Bráz JM, Shah NM, Julius D, Basbaum AI | The Journal of neuroscience : the official journal of the Society for Neuroscience | 21752988 | J Neurosci | 2011 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/21752988 |
| The androgen receptor governs the execution, but not programming, of male sexual and territorial behaviors. | Juntti SA, Tollkuhn J, Wu MV, Fraser EJ, Soderborg T, Tan S, Honda S, Harada N, Shah NM | Neuron | 20435002 | Neuron | 2010 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/20435002 |
| Control of masculinization of the brain and behavior. | Wu MV, Shah NM | Current opinion in neurobiology | 20970320 | Curr Opin Neurobiol | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20970320 |
| Generation of induced pluripotent stem cells from the prairie vole. | Manoli DS, Subramanyam D, Carey C, Sudin E, Van Westerhuyzen JA, Bales KL, Blelloch R, Shah NM | PloS one | 22675440 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22675440 |
| A custody battle for the mind: evidence for extensive imprinting in the brain. | Tollkuhn J, Xu X, Shah NM | Neuron | 20696374 | Neuron | 2010 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/20696374 |
| Trpv1 reporter mice reveal highly restricted brain distribution and functional expression in arteriolar smooth muscle cells. | Cavanaugh DJ, Chesler AT, Jackson AC, Sigal YM, Yamanaka H, Grant R, O'Donnell D, Nicoll RA, Shah NM, Julius D, Basbaum AI | The Journal of neuroscience : the official journal of the Society for Neuroscience | 21451044 | J Neurosci | 2011 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/21451044 |
| Balancing repair and tolerance of DNA damage caused by alkylating agents. | Fu D, Calvo JA, Samson LD | Nature reviews. Cancer | 22237395 | Nat Rev Cancer | 2012 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/22237395 |
| Localizer: fast, accurate, open-source, and modular software package for superresolution microscopy. | Dedecker P, Duwé S, Neely RK, Zhang J | Journal of biomedical optics | 23208219 | J Biomed Opt | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23208219 |
| Direct activation of Epac by sulfonylurea is isoform selective. | Herbst KJ, Coltharp C, Amzel LM, Zhang J | Chemistry & biology | 21338921 | Chem Biol | 2011 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/21338921 |
| Visualization of JNK activity dynamics with a genetically encoded fluorescent biosensor. | Fosbrink M, Aye-Han NN, Cheong R, Levchenko A, Zhang J | Proceedings of the National Academy of Sciences of the United States of America | 20212108 | Proc Natl Acad Sci U S A | 2010 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/20212108 |
| Genetically encodable fluorescent biosensors for tracking signaling dynamics in living cells. | Newman RH, Fosbrink MD, Zhang J | Chemical reviews | 21456512 | Chem Rev | 2011 May 11 | https://www.ncbi.nlm.nih.gov/pubmed/21456512 |
| Widely accessible method for superresolution fluorescence imaging of living systems. | Dedecker P, Mo GC, Dertinger T, Zhang J | Proceedings of the National Academy of Sciences of the United States of America | 22711840 | Proc Natl Acad Sci U S A | 2012 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/22711840 |
| Luminescent kinase activity biosensors based on a versatile bimolecular switch. | Herbst KJ, Allen MD, Zhang J | Journal of the American Chemical Society | 21438554 | J Am Chem Soc | 2011 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/21438554 |
| Global analysis of phosphorylation networks in humans. | Hu J, Rho HS, Newman RH, Hwang W, Neiswinger J, Zhu H, Zhang J, Qian J | Biochimica et biophysica acta | 23524292 | Biochim Biophys Acta | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23524292 |
| Galphas-biased beta2-adrenergic receptor signaling from restoring synchronous contraction in the failing heart. | Chakir K, Depry C, Dimaano VL, Zhu WZ, Vanderheyden M, Bartunek J, Abraham TP, Tomaselli GF, Liu SB, Xiang YK, Zhang M, Takimoto E, Dulin N, Xiao RP, Zhang J, Kass DA | Science translational medicine | 21918105 | Sci Transl Med | 2011 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/21918105 |
| How cells process information: quantification of spatiotemporal signaling dynamics. | Ganesan A, Zhang J | Protein science : a publication of the Protein Society | 22573643 | Protein Sci | 2012 Jul | https://www.ncbi.nlm.nih.gov/pubmed/22573643 |
| Regulation of nuclear PKA revealed by spatiotemporal manipulation of cyclic AMP. | Sample V, DiPilato LM, Yang JH, Ni Q, Saucerman JJ, Zhang J | Nature chemical biology | 22366721 | Nat Chem Biol | 2012 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/22366721 |
| Signaling diversity of PKA achieved via a Ca2+-cAMP-PKA oscillatory circuit. | Ni Q, Ganesan A, Aye-Han NN, Gao X, Allen MD, Levchenko A, Zhang J | Nature chemical biology | 21102470 | Nat Chem Biol | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21102470 |
| Reporting from the field: genetically encoded fluorescent reporters uncover signaling dynamics in living biological systems. | Mehta S, Zhang J | Annual review of biochemistry | 21495849 | Annu Rev Biochem | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21495849 |
| RNA interference knockdown of DNA methyl-transferase 3 affects gene alternative splicing in the honey bee. | Li-Byarlay H, Li Y, Stroud H, Feng S, Newman TC, Kaneda M, Hou KK, Worley KC, Elsik CG, Wickline SA, Jacobsen SE, Ma J, Robinson GE | Proceedings of the National Academy of Sciences of the United States of America | 23852726 | Proc Natl Acad Sci U S A | 2013 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/23852726 |
| Behavior-specific changes in transcriptional modules lead to distinct and predictable neurogenomic states. | Chandrasekaran S, Ament SA, Eddy JA, Rodriguez-Zas SL, Schatz BR, Price ND, Robinson GE | Proceedings of the National Academy of Sciences of the United States of America | 21960440 | Proc Natl Acad Sci U S A | 2011 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/21960440 |
| Physiology of reproductive worker honey bees (Apis mellifera): insights for the development of the worker caste. | Peso M, Even N, Søvik E, Naeger NL, Robinson GE, Barron AB | Journal of comparative physiology. A, Neuroethology, sensory, neural, and behavioral physiology | 26715114 | J Comp Physiol A Neuroethol Sens Neural Behav Physiol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26715114 |
| Comparative brain transcriptomic analyses of scouting across distinct behavioural and ecological contexts in honeybees. | Liang ZS, Mattila HR, Rodriguez-Zas SL, Southey BR, Seeley TD, Robinson GE | Proceedings. Biological sciences | 25355476 | Proc Biol Sci | 2014 Dec 22 | https://www.ncbi.nlm.nih.gov/pubmed/25355476 |
| Socially responsive effects of brain oxidative metabolism on aggression. | Li-Byarlay H, Rittschof CC, Massey JH, Pittendrigh BR, Robinson GE | Proceedings of the National Academy of Sciences of the United States of America | 25092297 | Proc Natl Acad Sci U S A | 2014 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/25092297 |
| Aggression is associated with aerobic glycolysis in the honey bee brain(1). | Chandrasekaran S, Rittschof CC, Djukovic D, Gu H, Raftery D, Price ND, Robinson GE | Genes, brain, and behavior | 25640316 | Genes Brain Behav | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25640316 |
| Molecular determinants of scouting behavior in honey bees. | Liang ZS, Nguyen T, Mattila HR, Rodriguez-Zas SL, Seeley TD, Robinson GE | Science (New York, N.Y.) | 22403390 | Science | 2012 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/22403390 |
| Neuropeptide Y-like signalling and nutritionally mediated gene expression and behaviour in the honey bee. | Ament SA, Velarde RA, Kolodkin MH, Moyse D, Robinson GE | Insect molecular biology | 21349120 | Insect Mol Biol | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21349120 |
| The genomes of two key bumblebee species with primitive eusocial organization. | Sadd BM, Barribeau SM, Bloch G, de Graaf DC, Dearden P, Elsik CG, Gadau J, Grimmelikhuijzen CJ, Hasselmann M, Lozier JD, Robertson HM, Smagghe G, Stolle E, Van Vaerenbergh M, Waterhouse RM, Bornberg-Bauer E, Klasberg S, Bennett AK, Câmara F, Guigó R, Hoff K, Mariotti M, Munoz-Torres M, Murphy T, Santesmasses D, Amdam GV, Beckers M, Beye M, Biewer M, Bitondi MM, Blaxter ML, Bourke AF, Brown MJ, Buechel SD, Cameron R, Cappelle K, Carolan JC, Christiaens O, Ciborowski KL, Clarke DF, Colgan TJ, Collins DH, Cridge AG, Dalmay T, Dreier S, du Plessis L, Duncan E, Erler S, Evans J, Falcon T, Flores K, Freitas FC, Fuchikawa T, Gempe T, Hartfelder K, Hauser F, Helbing S, Humann FC, Irvine F, Jermiin LS, Johnson CE, Johnson RM, Jones AK, Kadowaki T, Kidner JH, Koch V, Köhler A, Kraus FB, Lattorff HM, Leask M, Lockett GA, Mallon EB, Antonio DS, Marxer M, Meeus I, Moritz RF, Nair A, Näpflin K, Nissen I, Niu J, Nunes FM, Oakeshott JG, Osborne A, Otte M, Pinheiro DG, Rossié N, Rueppell O, Santos CG, Schmid-Hempel R, Schmitt BD, Schulte C, Simões ZL, Soares MP, Swevers L, Winnebeck EC, Wolschin F, Yu N, Zdobnov EM, Aqrawi PK, Blankenburg KP, Coyle M, Francisco L, Hernandez AG, Holder M, Hudson ME, Jackson L, Jayaseelan J, Joshi V, Kovar C, Lee SL, Mata R, Mathew T, Newsham IF, Ngo R, Okwuonu G, Pham C, Pu LL, Saada N, Santibanez J, Simmons D, Thornton R, Venkat A, Walden KK, Wu YQ, Debyser G, Devreese B, Asher C, Blommaert J, Chipman AD, Chittka L, Fouks B, Liu J, O'Neill MP, Sumner S, Puiu D, Qu J, Salzberg SL, Scherer SE, Muzny DM, Richards S, Robinson GE, Gibbs RA, Schmid-Hempel P, Worley KC | Genome biology | 25908251 | Genome Biol | 2015 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/25908251 |
| Transcriptomic analysis of instinctive and learned reward-related behaviors in honey bees. | Naeger NL, Robinson GE | The Journal of experimental biology | 27852762 | J Exp Biol | 2016 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/27852762 |
| Caste-specific differences in hindgut microbial communities of honey bees (Apis mellifera). | Kapheim KM, Rao VD, Yeoman CJ, Wilson BA, White BA, Goldenfeld N, Robinson GE | PloS one | 25874551 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25874551 |
| Insights into the Transcriptional Architecture of Behavioral Plasticity in the Honey Bee Apis mellifera. | Khamis AM, Hamilton AR, Medvedeva YA, Alam T, Alam I, Essack M, Umylny B, Jankovic BR, Naeger NL, Suzuki M, Harbers M, Robinson GE, Bajic VB | Scientific reports | 26073445 | Sci Rep | 2015 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/26073445 |
| Genomics: moving behavioural ecology beyond the phenotypic gambit. | Rittschof CC, Robinson GE | Animal behaviour | 24954950 | Anim Behav | 2014 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/24954950 |
| Meta-analysis of honey bee neurogenomic response links Deformed wing virus type A to precocious behavioral maturation. | Traniello IM, Bukhari SA, Kevill J, Ahmed AC, Hamilton AR, Naeger NL, Schroeder DC, Robinson GE | Scientific reports | 32080242 | Sci Rep | 2020 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/32080242 |
| New meta-analysis tools reveal common transcriptional regulatory basis for multiple determinants of behavior. | Ament SA, Blatti CA, Alaux C, Wheeler MM, Toth AL, Le Conte Y, Hunt GJ, Guzmán-Novoa E, Degrandi-Hoffman G, Uribe-Rubio JL, Amdam GV, Page RE Jr, Rodriguez-Zas SL, Robinson GE, Sinha S | Proceedings of the National Academy of Sciences of the United States of America | 22691501 | Proc Natl Acad Sci U S A | 2012 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/22691501 |
| Understanding the relationship between brain gene expression and social behavior: lessons from the honey bee. | Zayed A, Robinson GE | Annual review of genetics | 22994354 | Annu Rev Genet | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22994354 |
| Conservation in Mammals of Genes Associated with Aggression-Related Behavioral Phenotypes in Honey Bees. | Liu H, Robinson GE, Jakobsson E | PLoS computational biology | 27359102 | PLoS Comput Biol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27359102 |
| Laboratory Assay of Brood Care for Quantitative Analyses of Individual Differences in Honey Bee (Apis mellifera) Affiliative Behavior. | Shpigler HY, Robinson GE | PloS one | 26569402 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26569402 |
| Cross-linking in the silks of bees, ants and hornets. | Campbell PM, Trueman HE, Zhang Q, Kojima K, Kameda T, Sutherland TD | Insect biochemistry and molecular biology | 24607851 | Insect Biochem Mol Biol | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24607851 |
| Genomic features of a bumble bee symbiont reflect its host environment. | Martinson VG, Magoc T, Koch H, Salzberg SL, Moran NA | Applied and environmental microbiology | 24747890 | Appl Environ Microbiol | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24747890 |
| Manipulation of colony environment modulates honey bee aggression and brain gene expression. | Rittschof CC, Robinson GE | Genes, brain, and behavior | 24034579 | Genes Brain Behav | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24034579 |
| Brain regions and molecular pathways responding to food reward type and value in honey bees. | McNeill MS, Kapheim KM, Brockmann A, McGill TA, Robinson GE | Genes, brain, and behavior | 26566901 | Genes Brain Behav | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26566901 |
| Activity-dependent gene expression in honey bee mushroom bodies in response to orientation flight. | Lutz CC, Robinson GE | The Journal of experimental biology | 23678099 | J Exp Biol | 2013 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/23678099 |
| DNA methylation dynamics, metabolic fluxes, gene splicing, and alternative phenotypes in honey bees. | Foret S, Kucharski R, Pellegrini M, Feng S, Jacobsen SE, Robinson GE, Maleszka R | Proceedings of the National Academy of Sciences of the United States of America | 22416128 | Proc Natl Acad Sci U S A | 2012 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/22416128 |
| Social evolution. Genomic signatures of evolutionary transitions from solitary to group living. | Kapheim KM, Pan H, Li C, Salzberg SL, Puiu D, Magoc T, Robertson HM, Hudson ME, Venkat A, Fischman BJ, Hernandez A, Yandell M, Ence D, Holt C, Yocum GD, Kemp WP, Bosch J, Waterhouse RM, Zdobnov EM, Stolle E, Kraus FB, Helbing S, Moritz RF, Glastad KM, Hunt BG, Goodisman MA, Hauser F, Grimmelikhuijzen CJ, Pinheiro DG, Nunes FM, Soares MP, Tanaka ÉD, Simões ZL, Hartfelder K, Evans JD, Barribeau SM, Johnson RM, Massey JH, Southey BR, Hasselmann M, Hamacher D, Biewer M, Kent CF, Zayed A, Blatti C 3rd, Sinha S, Johnston JS, Hanrahan SJ, Kocher SD, Wang J, Robinson GE, Zhang G | Science (New York, N.Y.) | 25977371 | Science | 2015 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/25977371 |
| Leukocyte set points in metabolic disease. | Odegaard JI, Chawla A | F1000 biology reports | 22802874 | F1000 Biol Rep | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22802874 |
| The immune system as a sensor of the metabolic state. | Odegaard JI, Chawla A | Immunity | 23601683 | Immunity | 2013 Apr 18 | https://www.ncbi.nlm.nih.gov/pubmed/23601683 |
| Macrophage biology in development, homeostasis and disease. | Wynn TA, Chawla A, Pollard JW | Nature | 23619691 | Nature | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23619691 |
| Eosinophils sustain adipose alternatively activated macrophages associated with glucose homeostasis. | Wu D, Molofsky AB, Liang HE, Ricardo-Gonzalez RR, Jouihan HA, Bando JK, Chawla A, Locksley RM | Science (New York, N.Y.) | 21436399 | Science | 2011 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/21436399 |
| Insulin Signaling in a Bit of a Jam. | Kutyavin VI, Chawla A | Cell | 27058657 | Cell | 2016 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/27058657 |
| Macrophage-mediated inflammation in metabolic disease. | Chawla A, Nguyen KD, Goh YP | Nature reviews. Immunology | 21984069 | Nat Rev Immunol | 2011 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/21984069 |
| In obesity and weight loss, all roads lead to the mighty macrophage. | Red Eagle A, Chawla A | The Journal of clinical investigation | 20877005 | J Clin Invest | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20877005 |
| IL-4/STAT6 immune axis regulates peripheral nutrient metabolism and insulin sensitivity. | Ricardo-Gonzalez RR, Red Eagle A, Odegaard JI, Jouihan H, Morel CR, Heredia JE, Mukundan L, Wu D, Locksley RM, Chawla A | Proceedings of the National Academy of Sciences of the United States of America | 21149710 | Proc Natl Acad Sci U S A | 2010 Dec 28 | https://www.ncbi.nlm.nih.gov/pubmed/21149710 |
| Pleiotropic actions of insulin resistance and inflammation in metabolic homeostasis. | Odegaard JI, Chawla A | Science (New York, N.Y.) | 23307735 | Science | 2013 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/23307735 |
| Eosinophils and type 2 cytokine signaling in macrophages orchestrate development of functional beige fat. | Qiu Y, Nguyen KD, Odegaard JI, Cui X, Tian X, Locksley RM, Palmiter RD, Chawla A | Cell | 24906148 | Cell | 2014 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/24906148 |
| Type 2 innate signals stimulate fibro/adipogenic progenitors to facilitate muscle regeneration. | Heredia JE, Mukundan L, Chen FM, Mueller AA, Deo RC, Locksley RM, Rando TA, Chawla A | Cell | 23582327 | Cell | 2013 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/23582327 |
| Connecting type 1 and type 2 diabetes through innate immunity. | Odegaard JI, Chawla A | Cold Spring Harbor perspectives in medicine | 22393536 | Cold Spring Harb Perspect Med | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22393536 |
| Involvement of adenosine A2A receptors in engulfment-dependent apoptotic cell suppression of inflammation. | Köröskényi K, Duró E, Pallai A, Sarang Z, Kloor D, Ucker DS, Beceiro S, Castrillo A, Chawla A, Ledent CA, Fésüs L, Szondy Z | Journal of immunology (Baltimore, Md. : 1950) | 21593381 | J Immunol | 2011 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/21593381 |
| Alternatively activated macrophages produce catecholamines to sustain adaptive thermogenesis. | Nguyen KD, Qiu Y, Cui X, Goh YP, Mwangi J, David T, Mukundan L, Brombacher F, Locksley RM, Chawla A | Nature | 22101429 | Nature | 2011 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/22101429 |
| Alternative macrophage activation and metabolism. | Odegaard JI, Chawla A | Annual review of pathology | 21034223 | Annu Rev Pathol | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21034223 |
| Control of macrophage activation and function by PPARs. | Chawla A | Circulation research | 20508200 | Circ Res | 2010 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/20508200 |
| A whole-cell computational model predicts phenotype from genotype. | Karr JR, Sanghvi JC, Macklin DN, Gutschow MV, Jacobs JM, Bolival B Jr, Assad-Garcia N, Glass JI, Covert MW | Cell | 22817898 | Cell | 2012 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/22817898 |
| WholeCellKB: model organism databases for comprehensive whole-cell models. | Karr JR, Sanghvi JC, Macklin DN, Arora A, Covert MW | Nucleic acids research | 23175606 | Nucleic Acids Res | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23175606 |
| A forward-genetic screen and dynamic analysis of lambda phage host-dependencies reveals an extensive interaction network and a new anti-viral strategy. | Maynard ND, Birch EW, Sanghvi JC, Chen L, Gutschow MV, Covert MW | PLoS genetics | 20628568 | PLoS Genet | 2010 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/20628568 |
| WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions. | Karr JR, Phillips NC, Covert MW | Database : the journal of biological databases and curation | 25231498 | Database (Oxford) | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25231498 |
| The future of whole-cell modeling. | Macklin DN, Ruggero NA, Covert MW | Current opinion in biotechnology | 24556244 | Curr Opin Biotechnol | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24556244 |
| Accelerated discovery via a whole-cell model. | Sanghvi JC, Regot S, Carrasco S, Karr JR, Gutschow MV, Bolival B Jr, Covert MW | Nature methods | 24185838 | Nat Methods | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24185838 |
| WholeCellViz: data visualization for whole-cell models. | Lee R, Karr JR, Covert MW | BMC bioinformatics | 23964998 | BMC Bioinformatics | 2013 Aug 21 | https://www.ncbi.nlm.nih.gov/pubmed/23964998 |
| Why Build Whole-Cell Models? | Carrera J, Covert MW | Trends in cell biology | 26471224 | Trends Cell Biol | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26471224 |
| Single-cell and population NF-κB dynamic responses depend on lipopolysaccharide preparation. | Gutschow MV, Hughey JJ, Ruggero NA, Bajar BT, Valle SD, Covert MW | PloS one | 23301045 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23301045 |
| Simultaneous cross-evaluation of heterogeneous E. coli datasets via mechanistic simulation. | Macklin DN, Ahn-Horst TA, Choi H, Ruggero NA, Carrera J, Mason JC, Sun G, Agmon E, DeFelice MM, Maayan I, Lane K, Spangler RK, Gillies TE, Paull ML, Akhter S, Bray SR, Weaver DS, Keseler IM, Karp PD, Morrison JH, Covert MW | Science (New York, N.Y.) | 32703847 | Science | 2020 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/32703847 |
| High-sensitivity measurements of multiple kinase activities in live single cells. | Regot S, Hughey JJ, Bajar BT, Carrasco S, Covert MW | Cell | 24949979 | Cell | 2014 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/24949979 |
| Towards a whole-cell modeling approach for synthetic biology. | Purcell O, Jain B, Karr JR, Covert MW, Lu TK | Chaos (Woodbury, N.Y.) | 23822510 | Chaos | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23822510 |
| Competing pathways control host resistance to virus via tRNA modification and programmed ribosomal frameshifting. | Maynard ND, Macklin DN, Kirkegaard K, Covert MW | Molecular systems biology | 22294093 | Mol Syst Biol | 2012 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/22294093 |
| Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models. | Karr JR, Williams AH, Zucker JD, Raue A, Steiert B, Timmer J, Kreutz C, DREAM8 Parameter Estimation Challenge Consortium, Wilkinson S, Allgood BA, Bot BM, Hoff BR, Kellen MR, Covert MW, Stolovitzky GA, Meyer P | PLoS computational biology | 26020786 | PLoS Comput Biol | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/26020786 |
| The virus as metabolic engineer. | Maynard ND, Gutschow MV, Birch EW, Covert MW | Biotechnology journal | 20665642 | Biotechnol J | 2010 Jul | https://www.ncbi.nlm.nih.gov/pubmed/20665642 |
| In vivo imaging of myelin in the vertebrate central nervous system using third harmonic generation microscopy. | Farrar MJ, Wise FW, Fetcho JR, Schaffer CB | Biophysical journal | 21354410 | Biophys J | 2011 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/21354410 |
| Homeostatic regulation of dendritic dynamics in a motor map in vivo. | Kishore S, Fetcho JR | Nature communications | 23803587 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23803587 |
| In Vivo Measurement of Glycine Receptor Turnover and Synaptic Size Reveals Differences between Functional Classes of Motoneurons in Zebrafish. | Chow DM, Zuchowski KA, Fetcho JR | Current biology : CB | 28416115 | Curr Biol | 2017 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/28416115 |
| A circuit motif in the zebrafish hindbrain for a two alternative behavioral choice to turn left or right. | Koyama M, Minale F, Shum J, Nishimura N, Schaffer CB, Fetcho JR | eLife | 27502742 | Elife | 2016 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/27502742 |
| Movement, technology and discovery in the zebrafish. | McLean DL, Fetcho JR | Current opinion in neurobiology | 20970321 | Curr Opin Neurobiol | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20970321 |
| TRP channel mediated neuronal activation and ablation in freely behaving zebrafish. | Chen S, Chiu CN, McArthur KL, Fetcho JR, Prober DA | Nature methods | 26657556 | Nat Methods | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26657556 |
| A procedure for implanting a spinal chamber for longitudinal in vivo imaging of the mouse spinal cord. | Farrar MJ, Schaffer CB | Journal of visualized experiments : JoVE | 25548864 | J Vis Exp | 2014 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/25548864 |
| Key Features of Structural and Functional Organization of Zebrafish Facial Motor Neurons Are Resilient to Disruption of Neuronal Migration. | McArthur KL, Fetcho JR | Current biology : CB | 28602649 | Curr Biol | 2017 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/28602649 |
| Stimulus onset quenches neural variability: a widespread cortical phenomenon. | Churchland MM, Yu BM, Cunningham JP, Sugrue LP, Cohen MR, Corrado GS, Newsome WT, Clark AM, Hosseini P, Scott BB, Bradley DC, Smith MA, Kohn A, Movshon JA, Armstrong KM, Moore T, Chang SW, Snyder LH, Lisberger SG, Priebe NJ, Finn IM, Ferster D, Ryu SI, Santhanam G, Sahani M, Shenoy KV | Nature neuroscience | 20173745 | Nat Neurosci | 2010 Mar | https://www.ncbi.nlm.nih.gov/pubmed/20173745 |
| A recurrent neural network for closed-loop intracortical brain-machine interface decoders. | Sussillo D, Nuyujukian P, Fan JM, Kao JC, Stavisky SD, Ryu S, Shenoy K | Journal of neural engineering | 22427488 | J Neural Eng | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22427488 |
| Long-term stability of neural prosthetic control signals from silicon cortical arrays in rhesus macaque motor cortex. | Chestek CA, Gilja V, Nuyujukian P, Foster JD, Fan JM, Kaufman MT, Churchland MM, Rivera-Alvidrez Z, Cunningham JP, Ryu SI, Shenoy KV | Journal of neural engineering | 21775782 | J Neural Eng | 2011 Aug | https://www.ncbi.nlm.nih.gov/pubmed/21775782 |
| An optogenetic toolbox designed for primates. | Diester I, Kaufman MT, Mogri M, Pashaie R, Goo W, Yizhar O, Ramakrishnan C, Deisseroth K, Shenoy KV | Nature neuroscience | 21278729 | Nat Neurosci | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21278729 |
| Cortical preparatory activity: representation of movement or first cog in a dynamical machine? | Churchland MM, Cunningham JP, Kaufman MT, Ryu SI, Shenoy KV | Neuron | 21040842 | Neuron | 2010 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/21040842 |
| Neural population dynamics during reaching. | Churchland MM, Cunningham JP, Kaufman MT, Foster JD, Nuyujukian P, Ryu SI, Shenoy KV | Nature | 22722855 | Nature | 2012 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/22722855 |
| Accurate Estimation of Neural Population Dynamics without Spike Sorting. | Trautmann EM, Stavisky SD, Lahiri S, Ames KC, Kaufman MT, O'Shea DJ, Vyas S, Sun X, Ryu SI, Ganguli S, Shenoy KV | Neuron | 31171448 | Neuron | 2019 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/31171448 |
| Re-valuing the amygdala. | Morrison SE, Salzman CD | Current opinion in neurobiology | 20299204 | Curr Opin Neurobiol | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20299204 |
| A closed-loop human simulator for investigating the role of feedback control in brain-machine interfaces. | Cunningham JP, Nuyujukian P, Gilja V, Chestek CA, Ryu SI, Shenoy KV | Journal of neurophysiology | 20943945 | J Neurophysiol | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20943945 |
| DataHigh: graphical user interface for visualizing and interacting with high-dimensional neural activity. | Cowley BR, Kaufman MT, Butler ZS, Churchland MM, Ryu SI, Shenoy KV, Yu BM | Journal of neural engineering | 24216250 | J Neural Eng | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24216250 |
| Spiking Neural Network Decoder for Brain-Machine Interfaces. | Dethier J, Gilja V, Nuyujukian P, Elassaad SA, Shenoy KV, Boahen K | International IEEE/EMBS Conference on Neural Engineering : [proceedings]. International IEEE EMBS Conference on Neural Engineering | 24352611 | Int IEEE EMBS Conf Neural Eng | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/24352611 |
| The roles of monkey M1 neuron classes in movement preparation and execution. | Kaufman MT, Churchland MM, Shenoy KV | Journal of neurophysiology | 23699057 | J Neurophysiol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23699057 |
| A brain machine interface control algorithm designed from a feedback control perspective. | Gilja V, Nuyujukian P, Chestek CA, Cunningham JP, Yu BM, Fan JM, Ryu SI, Shenoy KV | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23366141 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23366141 |
| Combining Wireless Neural Recording and Video Capture for the Analysis of Natural Gait. | Foster JD, Freifeld O, Nuyujukian P, Ryu SI, Black MJ, Shenoy KV | International IEEE/EMBS Conference on Neural Engineering : [proceedings]. International IEEE EMBS Conference on Neural Engineering | 26019730 | Int IEEE EMBS Conf Neural Eng | 2011 Apr-May | https://www.ncbi.nlm.nih.gov/pubmed/26019730 |
| Neural correlates of attention and distractibility in the lateral intraparietal area. | Bisley JW, Goldberg ME | Journal of neurophysiology | 16339000 | J Neurophysiol | 2006 Mar | https://www.ncbi.nlm.nih.gov/pubmed/16339000 |
| A freely-moving monkey treadmill model. | Foster JD, Nuyujukian P, Freifeld O, Gao H, Walker R, I Ryu S, H Meng T, Murmann B, J Black M, Shenoy KV | Journal of neural engineering | 24995476 | J Neural Eng | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24995476 |
| Intention estimation in brain-machine interfaces. | Fan JM, Nuyujukian P, Kao JC, Chestek CA, Ryu SI, Shenoy KV | Journal of neural engineering | 24654266 | J Neural Eng | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24654266 |
| Challenges and opportunities for next-generation intracortically based neural prostheses. | Gilja V, Chestek CA, Diester I, Henderson JM, Deisseroth K, Shenoy KV | IEEE transactions on bio-medical engineering | 21257365 | IEEE Trans Biomed Eng | 2011 Jul | https://www.ncbi.nlm.nih.gov/pubmed/21257365 |
| Low-dimensional neural features predict muscle EMG signals. | Rivera-Alvidrez Z, Kalmar RS, Ryu SI, Shenoy KV | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 21097116 | Annu Int Conf IEEE Eng Med Biol Soc | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/21097116 |
| ERAASR: an algorithm for removing electrical stimulation artifacts from multielectrode array recordings. | O'Shea DJ, Shenoy KV | Journal of neural engineering | 29265009 | J Neural Eng | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29265009 |
| Autonomous head-mounted electrophysiology systems for freely behaving primates. | Gilja V, Chestek CA, Nuyujukian P, Foster J, Shenoy KV | Current opinion in neurobiology | 20655733 | Curr Opin Neurobiol | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20655733 |
| A high-performance keyboard neural prosthesis enabled by task optimization. | Nuyujukian P, Fan JM, Kao JC, Ryu SI, Shenoy KV | IEEE transactions on bio-medical engineering | 25203982 | IEEE Trans Biomed Eng | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25203982 |
| Neural dynamics of reaching following incorrect or absent motor preparation. | Ames KC, Ryu SI, Shenoy KV | Neuron | 24462104 | Neuron | 2014 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/24462104 |
| Context-dependent computation by recurrent dynamics in prefrontal cortex. | Mante V, Sussillo D, Shenoy KV, Newsome WT | Nature | 24201281 | Nature | 2013 Nov 7 | https://www.ncbi.nlm.nih.gov/pubmed/24201281 |
| Cortical control of arm movements: a dynamical systems perspective. | Shenoy KV, Sahani M, Churchland MM | Annual review of neuroscience | 23725001 | Annu Rev Neurosci | 2013 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/23725001 |
| Development of an optogenetic toolkit for neural circuit dissection in squirrel monkeys. | O'Shea DJ, Kalanithi P, Ferenczi EA, Hsueh B, Chandrasekaran C, Goo W, Diester I, Ramakrishnan C, Kaufman MT, Ryu SI, Yeom KW, Deisseroth K, Shenoy KV | Scientific reports | 29712920 | Sci Rep | 2018 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/29712920 |
| A high-performance neural prosthesis enabled by control algorithm design. | Gilja V, Nuyujukian P, Chestek CA, Cunningham JP, Yu BM, Fan JM, Churchland MM, Kaufman MT, Kao JC, Ryu SI, Shenoy KV | Nature neuroscience | 23160043 | Nat Neurosci | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23160043 |
| A Non-Human Primate Brain-Computer Typing Interface. | Nuyujukian P, Kao JC, Ryu SI, Shenoy KV | Proceedings of the IEEE. Institute of Electrical and Electronics Engineers | 33746239 | Proc IEEE Inst Electr Electron Eng | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33746239 |
| A coaxial optrode as multifunction write-read probe for optogenetic studies in non-human primates. | Ozden I, Wang J, Lu Y, May T, Lee J, Goo W, O'Shea DJ, Kalanithi P, Diester I, Diagne M, Deisseroth K, Shenoy KV, Nurmikko AV | Journal of neuroscience methods | 23867081 | J Neurosci Methods | 2013 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/23867081 |
| Design and validation of a real-time spiking-neural-network decoder for brain-machine interfaces. | Dethier J, Nuyujukian P, Ryu SI, Shenoy KV, Boahen K | Journal of neural engineering | 23574919 | J Neural Eng | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23574919 |
| Roles of monkey premotor neuron classes in movement preparation and execution. | Kaufman MT, Churchland MM, Santhanam G, Yu BM, Afshar A, Ryu SI, Shenoy KV | Journal of neurophysiology | 20538784 | J Neurophysiol | 2010 Aug | https://www.ncbi.nlm.nih.gov/pubmed/20538784 |
| A dynamical systems view of motor preparation: implications for neural prosthetic system design. | Shenoy KV, Kaufman MT, Sahani M, Churchland MM | Progress in brain research | 21763517 | Prog Brain Res | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21763517 |
| Monkey models for brain-machine interfaces: the need for maintaining diversity. | Nuyujukian P, Fan JM, Gilja V, Kalanithi PS, Chestek CA, Shenoy KV | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254555 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254555 |
| A framework for relating neural activity to freely moving behavior. | Foster JD, Nuyujukian P, Freifeld O, Ryu SI, Black MJ, Shenoy KV | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23366491 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23366491 |
| Self-recalibrating classifiers for intracortical brain-computer interfaces. | Bishop W, Chestek CC, Gilja V, Nuyujukian P, Foster JD, Ryu SI, Shenoy KV, Yu BM | Journal of neural engineering | 24503597 | J Neural Eng | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24503597 |
| Neural circuits as computational dynamical systems. | Sussillo D | Current opinion in neurobiology | 24509098 | Curr Opin Neurobiol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24509098 |
| The Largest Response Component in the Motor Cortex Reflects Movement Timing but Not Movement Type. | Kaufman MT, Seely JS, Sussillo D, Ryu SI, Shenoy KV, Churchland MM | eNeuro | 27761519 | eNeuro | 2016 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/27761519 |
| Combining decoder design and neural adaptation in brain-machine interfaces. | Shenoy KV, Carmena JM | Neuron | 25459407 | Neuron | 2014 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/25459407 |
| Cortical activity in the null space: permitting preparation without movement. | Kaufman MT, Churchland MM, Ryu SI, Shenoy KV | Nature neuroscience | 24487233 | Nat Neurosci | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24487233 |
| Investigating the role of firing-rate normalization and dimensionality reduction in brain-machine interface robustness. | Kao JC, Nuyujukian P, Stavisky S, Ryu SI, Ganguli S, Shenoy KV | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 24109682 | Annu Int Conf IEEE Eng Med Biol Soc | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24109682 |
| Cytoplasmic intron sequence-retaining transcripts can be dendritically targeted via ID element retrotransposons. | Buckley PT, Lee MT, Sul JY, Miyashiro KY, Bell TJ, Fisher SA, Kim J, Eberwine J | Neuron | 21382548 | Neuron | 2011 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/21382548 |
| Serotonergic neuron regulation informed by in vivo single-cell transcriptomics. | Spaethling JM, Piel D, Dueck H, Buckley PT, Morris JF, Fisher SA, Lee J, Sul JY, Kim J, Bartfai T, Beck SG, Eberwine JH | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 24192459 | FASEB J | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24192459 |
| Perspectives on cell reprogramming with RNA. | Sul JY, Kim TK, Lee JH, Eberwine J | Trends in biotechnology | 22459515 | Trends Biotechnol | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22459515 |
| Insulin-like growth factor 1-mediated hyperthermia involves anterior hypothalamic insulin receptors. | Sanchez-Alavez M, Osborn O, Tabarean IV, Holmberg KH, Eberwine J, Kahn CR, Bartfai T | The Journal of biological chemistry | 21330367 | J Biol Chem | 2011 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/21330367 |
| Towards A Fully Automated High-Throughput Phototransfection System. | Cappelleri DJ, Halasz A, Sul JY, Kim TK, Eberwine J, Kumar V | JALA (Charlottesville, Va.) | 20706617 | JALA Charlottesv Va | 2010 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/20706617 |
| Insulin causes hyperthermia by direct inhibition of warm-sensitive neurons. | Sanchez-Alavez M, Tabarean IV, Osborn O, Mitsukawa K, Schaefer J, Dubins J, Holmberg KH, Klein I, Klaus J, Gomez LF, Kolb H, Secrest J, Jochems J, Myashiro K, Buckley P, Hadcock JR, Eberwine J, Conti B, Bartfai T | Diabetes.. | 19846801 | Diabetes | 2010 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19846801 |
| Transcriptome in vivo analysis (TIVA) of spatially defined single cells in live tissue. | Lovatt D, Ruble BK, Lee J, Dueck H, Kim TK, Fisher S, Francis C, Spaethling JM, Wolf JA, Grady MS, Ulyanova AV, Yeldell SB, Griepenburg JC, Buckley PT, Kim J, Sul JY, Dmochowski IJ, Eberwine J | Nature methods | 24412976 | Nat Methods | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24412976 |
| RNA: state memory and mediator of cellular phenotype. | Kim J, Eberwine J | Trends in cell biology | 20382532 | Trends Cell Biol | 2010 Jun | https://www.ncbi.nlm.nih.gov/pubmed/20382532 |
| Transcriptome transfer produces a predictable cellular phenotype. | Sul JY, Wu CW, Zeng F, Jochems J, Lee MT, Kim TK, Peritz T, Buckley P, Cappelleri DJ, Maronski M, Kim M, Kumar V, Meaney D, Kim J, Eberwine J | Proceedings of the National Academy of Sciences of the United States of America | 19380745 | Proc Natl Acad Sci U S A | 2009 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/19380745 |
| Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation. | Dueck H, Khaladkar M, Kim TK, Spaethling JM, Francis C, Suresh S, Fisher SA, Seale P, Beck SG, Bartfai T, Kuhn B, Eberwine J, Kim J | Genome biology | 26056000 | Genome Biol | 2015 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/26056000 |
| Cytoplasmic intron retention, function, splicing, and the sentinel RNA hypothesis. | Buckley PT, Khaladkar M, Kim J, Eberwine J | Wiley interdisciplinary reviews. RNA | 24190870 | Wiley Interdiscip Rev RNA | 2014 Mar-Apr | https://www.ncbi.nlm.nih.gov/pubmed/24190870 |
| Caenorhabditis elegans: a model system for systems neuroscience. | Sengupta P, Samuel AD | Current opinion in neurobiology | 19896359 | Curr Opin Neurobiol | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19896359 |
| Sensory determinants of behavioral dynamics in Drosophila thermotaxis. | Klein M, Afonso B, Vonner AJ, Hernandez-Nunez L, Berck M, Tabone CJ, Kane EA, Pieribone VA, Nitabach MN, Cardona A, Zlatic M, Sprecher SG, Gershow M, Garrity PA, Samuel AD | Proceedings of the National Academy of Sciences of the United States of America | 25550513 | Proc Natl Acad Sci U S A | 2015 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/25550513 |
| Proprioceptive coupling within motor neurons drives C. elegans forward locomotion. | Wen Q, Po MD, Hulme E, Chen S, Liu X, Kwok SW, Gershow M, Leifer AM, Butler V, Fang-Yen C, Kawano T, Schafer WR, Whitesides G, Wyart M, Chklovskii DB, Zhen M, Samuel AD | Neuron | 23177960 | Neuron | 2012 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/23177960 |
| Multimodal stimulus coding by a gustatory sensory neuron in Drosophila larvae. | van Giesen L, Hernandez-Nunez L, Delasoie-Baranek S, Colombo M, Renaud P, Bruggmann R, Benton R, Samuel ADT, Sprecher SG | Nature communications | 26864722 | Nat Commun | 2016 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/26864722 |
| Optogenetic manipulation of neural activity in freely moving Caenorhabditis elegans. | Leifer AM, Fang-Yen C, Gershow M, Alkema MJ, Samuel AD | Nature methods | 21240279 | Nat Methods | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21240279 |
| Navigational decision making in Drosophila thermotaxis. | Luo L, Gershow M, Rosenzweig M, Kang K, Fang-Yen C, Garrity PA, Samuel AD | The Journal of neuroscience : the official journal of the Society for Neuroscience | 20335462 | J Neurosci | 2010 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/20335462 |
| Running hot and cold: behavioral strategies, neural circuits, and the molecular machinery for thermotaxis in C. elegans and Drosophila. | Garrity PA, Goodman MB, Samuel AD, Sengupta P | Genes & development | 21041406 | Genes Dev | 2010 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/21041406 |
| Computational design of a red fluorophore ligase for site-specific protein labeling in living cells. | Liu DS, Nivón LG, Richter F, Goldman PJ, Deerinck TJ, Yao JZ, Richardson D, Phipps WS, Ye AZ, Ellisman MH, Drennan CL, Baker D, Ting AY | Proceedings of the National Academy of Sciences of the United States of America | 25313043 | Proc Natl Acad Sci U S A | 2014 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/25313043 |
| Imaging activity-dependent regulation of neurexin-neuroligin interactions using trans-synaptic enzymatic biotinylation. | Thyagarajan A, Ting AY | Cell | 20933261 | Cell | 2010 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/20933261 |
| Imaging trans-cellular neurexin-neuroligin interactions by enzymatic probe ligation. | Liu DS, Loh KH, Lam SS, White KA, Ting AY | PloS one | 23457442 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23457442 |
| Proteomic mapping of the human mitochondrial intermembrane space in live cells via ratiometric APEX tagging. | Hung V, Zou P, Rhee HW, Udeshi ND, Cracan V, Svinkina T, Carr SA, Mootha VK, Ting AY | Molecular cell | 25002142 | Mol Cell | 2014 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/25002142 |
| Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging. | Rhee HW, Zou P, Udeshi ND, Martell JD, Mootha VK, Carr SA, Ting AY | Science (New York, N.Y.) | 23371551 | Science | 2013 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/23371551 |
| Engineered ascorbate peroxidase as a genetically encoded reporter for electron microscopy. | Martell JD, Deerinck TJ, Sancak Y, Poulos TL, Mootha VK, Sosinsky GE, Ellisman MH, Ting AY | Nature biotechnology | 23086203 | Nat Biotechnol | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23086203 |
| Antibiotics induce redox-related physiological alterations as part of their lethality. | Dwyer DJ, Belenky PA, Yang JH, MacDonald IC, Martell JD, Takahashi N, Chan CT, Lobritz MA, Braff D, Schwarz EG, Ye JD, Pati M, Vercruysse M, Ralifo PS, Allison KR, Khalil AS, Ting AY, Walker GC, Collins JJ | Proceedings of the National Academy of Sciences of the United States of America | 24803433 | Proc Natl Acad Sci U S A | 2014 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/24803433 |
| From elements to modules: regulatory evolution in Ascomycota fungi. | Wohlbach DJ, Thompson DA, Gasch AP, Regev A | Current opinion in genetics & development | 19879128 | Curr Opin Genet Dev | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19879128 |
| Ab initio construction of a eukaryotic transcriptome by massively parallel mRNA sequencing. | Yassour M, Kaplan T, Fraser HB, Levin JZ, Pfiffner J, Adiconis X, Schroth G, Luo S, Khrebtukova I, Gnirke A, Nusbaum C, Thompson DA, Friedman N, Regev A | Proceedings of the National Academy of Sciences of the United States of America | 19208812 | Proc Natl Acad Sci U S A | 2009 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/19208812 |
| Chromatin profiling by directly sequencing small quantities of immunoprecipitated DNA. | Goren A, Ozsolak F, Shoresh N, Ku M, Adli M, Hart C, Gymrek M, Zuk O, Regev A, Milos PM, Bernstein BE | Nature methods | 19946276 | Nat Methods | 2010 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19946276 |
| In vivo profiles in malaria are consistent with a novel physiological state. | Wirth D, Daily J, Winzeler E, Mesirov JP, Regev A | Proceedings of the National Academy of Sciences of the United States of America | 19570993 | Proc Natl Acad Sci U S A | 2009 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/19570993 |
| Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells. | Rabani M, Levin JZ, Fan L, Adiconis X, Raychowdhury R, Garber M, Gnirke A, Nusbaum C, Hacohen N, Friedman N, Amit I, Regev A | Nature biotechnology | 21516085 | Nat Biotechnol | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21516085 |
| Full-length transcriptome assembly from RNA-Seq data without a reference genome. | Grabherr MG, Haas BJ, Yassour M, Levin JZ, Thompson DA, Amit I, Adiconis X, Fan L, Raychowdhury R, Zeng Q, Chen Z, Mauceli E, Hacohen N, Gnirke A, Rhind N, di Palma F, Birren BW, Nusbaum C, Lindblad-Toh K, Friedman N, Regev A | Nature biotechnology | 21572440 | Nat Biotechnol | 2011 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/21572440 |
| Comprehensive comparative analysis of strand-specific RNA sequencing methods. | Levin JZ, Yassour M, Adiconis X, Nusbaum C, Thompson DA, Friedman N, Gnirke A, Regev A | Nature methods | 20711195 | Nat Methods | 2010 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20711195 |
| A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. | Huarte M, Guttman M, Feldser D, Garber M, Koziol MJ, Kenzelmann-Broz D, Khalil AM, Zuk O, Amit I, Rabani M, Attardi LD, Regev A, Lander ES, Jacks T, Rinn JL | Cell | 20673990 | Cell | 2010 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/20673990 |
| Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species. | Yassour M, Pfiffner J, Levin JZ, Adiconis X, Gnirke A, Nusbaum C, Thompson DA, Friedman N, Regev A | Genome biology | 20796282 | Genome Biol | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/20796282 |
| Inference and Evolutionary Analysis of Genome-Scale Regulatory Networks in Large Phylogenies. | Koch C, Konieczka J, Delorey T, Lyons A, Socha A, Davis K, Knaack SA, Thompson D, O'Shea EK, Regev A, Roy S | Cell systems | 28544882 | Cell Syst | 2017 May 24 | https://www.ncbi.nlm.nih.gov/pubmed/28544882 |
| Induction and molecular signature of pathogenic TH17 cells. | Lee Y, Awasthi A, Yosef N, Quintana FJ, Xiao S, Peters A, Wu C, Kleinewietfeld M, Kunder S, Hafler DA, Sobel RA, Regev A, Kuchroo VK | Nature immunology | 22961052 | Nat Immunol | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22961052 |
| Single-cell RNA-seq reveals dynamic paracrine control of cellular variation. | Shalek AK, Satija R, Shuga J, Trombetta JJ, Gennert D, Lu D, Chen P, Gertner RS, Gaublomme JT, Yosef N, Schwartz S, Fowler B, Weaver S, Wang J, Wang X, Ding R, Raychowdhury R, Friedman N, Hacohen N, Park H, May AP, Regev A | Nature | 24919153 | Nature | 2014 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/24919153 |
| Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. | Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, Huarte M, Zuk O, Carey BW, Cassady JP, Cabili MN, Jaenisch R, Mikkelsen TS, Jacks T, Hacohen N, Bernstein BE, Kellis M, Regev A, Rinn JL, Lander ES | Nature | 19182780 | Nature | 2009 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/19182780 |
| Chromatin signature of embryonic pluripotency is established during genome activation. | Vastenhouw NL, Zhang Y, Woods IG, Imam F, Regev A, Liu XS, Rinn J, Schier AF | Nature | 20336069 | Nature | 2010 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/20336069 |
| Fungal regulatory evolution: cis and trans in the balance. | Thompson DA, Regev A | FEBS letters | 19914250 | FEBS Lett | 2009 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/19914250 |
| Gene duplication and the evolution of ribosomal protein gene regulation in yeast. | Wapinski I, Pfiffner J, French C, Socha A, Thompson DA, Regev A | Proceedings of the National Academy of Sciences of the United States of America | 20212107 | Proc Natl Acad Sci U S A | 2010 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/20212107 |
| SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas. | Bass AJ, Watanabe H, Mermel CH, Yu S, Perner S, Verhaak RG, Kim SY, Wardwell L, Tamayo P, Gat-Viks I, Ramos AH, Woo MS, Weir BA, Getz G, Beroukhim R, O'Kelly M, Dutt A, Rozenblatt-Rosen O, Dziunycz P, Komisarof J, Chirieac LR, Lafargue CJ, Scheble V, Wilbertz T, Ma C, Rao S, Nakagawa H, Stairs DB, Lin L, Giordano TJ, Wagner P, Minna JD, Gazdar AF, Zhu CQ, Brose MS, Cecconello I, Ribeiro U Jr, Marie SK, Dahl O, Shivdasani RA, Tsao MS, Rubin MA, Wong KK, Regev A, Hahn WC, Beer DG, Rustgi AK, Meyerson M | Nature genetics | 19801978 | Nat Genet | 2009 Nov | https://www.ncbi.nlm.nih.gov/pubmed/19801978 |
| Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. | Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Rivea Morales D, Thomas K, Presser A, Bernstein BE, van Oudenaarden A, Regev A, Lander ES, Rinn JL | Proceedings of the National Academy of Sciences of the United States of America | 19571010 | Proc Natl Acad Sci U S A | 2009 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/19571010 |
| Induction of pathogenic TH17 cells by inducible salt-sensing kinase SGK1. | Wu C, Yosef N, Thalhamer T, Zhu C, Xiao S, Kishi Y, Regev A, Kuchroo VK | Nature | 23467085 | Nature | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23467085 |
| Preparation of Single-Cell RNA-Seq Libraries for Next Generation Sequencing. | Trombetta JJ, Gennert D, Lu D, Satija R, Shalek AK, Regev A | Current protocols in molecular biology | 24984854 | Curr Protoc Mol Biol | 2014 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/24984854 |
| DNA methylation dynamics of the human preimplantation embryo. | Smith ZD, Chan MM, Humm KC, Karnik R, Mekhoubad S, Regev A, Eggan K, Meissner A | Nature | 25079558 | Nature | 2014 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/25079558 |
| Densely interconnected transcriptional circuits control cell states in human hematopoiesis. | Novershtern N, Subramanian A, Lawton LN, Mak RH, Haining WN, McConkey ME, Habib N, Yosef N, Chang CY, Shay T, Frampton GM, Drake AC, Leskov I, Nilsson B, Preffer F, Dombkowski D, Evans JW, Liefeld T, Smutko JS, Chen J, Friedman N, Young RA, Golub TR, Regev A, Ebert BL | Cell | 21241896 | Cell | 2011 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/21241896 |
| Determinants of divergent adaptation and Dobzhansky-Muller interaction in experimental yeast populations. | Anderson JB, Funt J, Thompson DA, Prabhu S, Socha A, Sirjusingh C, Dettman JR, Parreiras L, Guttman DS, Regev A, Kohn LM | Current biology : CB | 20637622 | Curr Biol | 2010 Aug 10 | https://www.ncbi.nlm.nih.gov/pubmed/20637622 |
| Physical Module Networks: an integrative approach for reconstructing transcription regulation. | Novershtern N, Regev A, Friedman N | Bioinformatics (Oxford, England) | 21685068 | Bioinformatics | 2011 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/21685068 |
| Comparative functional genomics of the fission yeasts. | Rhind N, Chen Z, Yassour M, Thompson DA, Haas BJ, Habib N, Wapinski I, Roy S, Lin MF, Heiman DI, Young SK, Furuya K, Guo Y, Pidoux A, Chen HM, Robbertse B, Goldberg JM, Aoki K, Bayne EH, Berlin AM, Desjardins CA, Dobbs E, Dukaj L, Fan L, FitzGerald MG, French C, Gujja S, Hansen K, Keifenheim D, Levin JZ, Mosher RA, Müller CA, Pfiffner J, Priest M, Russ C, Smialowska A, Swoboda P, Sykes SM, Vaughn M, Vengrova S, Yoder R, Zeng Q, Allshire R, Baulcombe D, Birren BW, Brown W, Ekwall K, Kellis M, Leatherwood J, Levin H, Margalit H, Martienssen R, Nieduszynski CA, Spatafora JW, Friedman N, Dalgaard JZ, Baumann P, Niki H, Regev A, Nusbaum C | Science (New York, N.Y.) | 21511999 | Science | 2011 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/21511999 |
| BRNI: Modular analysis of transcriptional regulatory programs. | Nachman I, Regev A | BMC bioinformatics | 19457258 | BMC Bioinformatics | 2009 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/19457258 |
| Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses. | Amit I, Garber M, Chevrier N, Leite AP, Donner Y, Eisenhaure T, Guttman M, Grenier JK, Li W, Zuk O, Schubert LA, Birditt B, Shay T, Goren A, Zhang X, Smith Z, Deering R, McDonald RC, Cabili M, Bernstein BE, Rinn JL, Meissner A, Root DE, Hacohen N, Regev A | Science (New York, N.Y.) | 19729616 | Science | 2009 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/19729616 |
| Transcriptional regulatory circuits: predicting numbers from alphabets. | Kim HD, Shay T, O'Shea EK, Regev A | Science (New York, N.Y.) | 19628860 | Science | 2009 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/19628860 |
| The role of nucleosome positioning in the evolution of gene regulation. | Tsankov AM, Thompson DA, Socha A, Regev A, Rando OJ | PLoS biology | 20625544 | PLoS Biol | 2010 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/20625544 |
| Localization and abundance analysis of human lncRNAs at single-cell and single-molecule resolution. | Cabili MN, Dunagin MC, McClanahan PD, Biaesch A, Padovan-Merhar O, Regev A, Rinn JL, Raj A | Genome biology | 25630241 | Genome Biol | 2015 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/25630241 |
| Small-molecule RORγt antagonists inhibit T helper 17 cell transcriptional network by divergent mechanisms. | Xiao S, Yosef N, Yang J, Wang Y, Zhou L, Zhu C, Wu C, Baloglu E, Schmidt D, Ramesh R, Lobera M, Sundrud MS, Tsai PY, Xiang Z, Wang J, Xu Y, Lin X, Kretschmer K, Rahl PB, Young RA, Zhong Z, Hafler DA, Regev A, Ghosh S, Marson A, Kuchroo VK | Immunity | 24745332 | Immunity | 2014 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/24745332 |
| Electrical recording from hearts with flexible nanowire device arrays. | Timko BP, Cohen-Karni T, Yu G, Qing Q, Tian B, Lieber CM | Nano letters | 19170614 | Nano Lett | 2009 Feb | https://www.ncbi.nlm.nih.gov/pubmed/19170614 |
| Nanoelectronics meets biology: from new nanoscale devices for live-cell recording to 3D innervated tissues. | Duan X, Lieber CM | Chemistry, an Asian journal | 23946279 | Chem Asian J | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23946279 |
| Outside looking in: nanotube transistor intracellular sensors. | Gao R, Strehle S, Tian B, Cohen-Karni T, Xie P, Duan X, Qing Q, Lieber CM | Nano letters | 22583370 | Nano Lett | 2012 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/22583370 |
| Design and synthesis of diverse functional kinked nanowire structures for nanoelectronic bioprobes. | Xu L, Jiang Z, Qing Q, Mai L, Zhang Q, Lieber CM | Nano letters | 23273386 | Nano Lett | 2013 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/23273386 |
| Synthetic nanoelectronic probes for biological cells and tissues. | Tian B, Lieber CM | Annual review of analytical chemistry (Palo Alto, Calif.) | 23451719 | Annu Rev Anal Chem (Palo Alto Calif) | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23451719 |
| Semiconductor nanowires: A platform for nanoscience and nanotechnology. | Lieber CM | MRS bulletin | 22707850 | MRS Bull | 2011 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/22707850 |
| Three-dimensional, flexible nanoscale field-effect transistors as localized bioprobes. | Tian B, Cohen-Karni T, Qing Q, Duan X, Xie P, Lieber CM | Science (New York, N.Y.) | 20705858 | Science | 2010 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/20705858 |
| Free-standing kinked nanowire transistor probes for targeted intracellular recording in three dimensions. | Qing Q, Jiang Z, Xu L, Gao R, Mai L, Lieber CM | Nature nanotechnology | 24336402 | Nat Nanotechnol | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24336402 |
| Nanoelectronics-biology frontier: From nanoscopic probes for action potential recording in live cells to three-dimensional cyborg tissues. | Duan X, Fu TM, Liu J, Lieber CM | Nano today | 24073014 | Nano Today | 2013 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/24073014 |
| Synthetically encoded ultrashort-channel nanowire transistors for fast, pointlike cellular signal detection. | Cohen-Karni T, Casanova D, Cahoon JF, Qing Q, Bell DC, Lieber CM | Nano letters | 22468846 | Nano Lett | 2012 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/22468846 |
| Design and Implementation of Functional Nanoelectronic Interfaces With Biomolecules, Cells, and Tissue Using Nanowire Device Arrays. | Timko BP, Cohen-Karni T, Qing Q, Tian B, Lieber CM | IEEE transactions on nanotechnology | 21785576 | IEEE Trans Nanotechnol | 2010 May | https://www.ncbi.nlm.nih.gov/pubmed/21785576 |
| Macroporous nanowire nanoelectronic scaffolds for synthetic tissues. | Tian B, Liu J, Dvir T, Jin L, Tsui JH, Qing Q, Suo Z, Langer R, Kohane DS, Lieber CM | Nature materials | 22922448 | Nat Mater | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/22922448 |
| Design, synthesis, and characterization of novel nanowire structures for photovoltaics and intracellular probes. | Tian B, Lieber CM | Pure and applied chemistry. Chimie pure et appliquee | 22707797 | Pure Appl Chem | 2011 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/22707797 |
| Nanowire transistor arrays for mapping neural circuits in acute brain slices. | Qing Q, Pal SK, Tian B, Duan X, Timko BP, Cohen-Karni T, Murthy VN, Lieber CM | Proceedings of the National Academy of Sciences of the United States of America | 20133836 | Proc Natl Acad Sci U S A | 2010 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/20133836 |
| Local electrical potential detection of DNA by nanowire-nanopore sensors. | Xie P, Xiong Q, Fang Y, Qing Q, Lieber CM | Nature nanotechnology | 22157724 | Nat Nanotechnol | 2011 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/22157724 |
| Nanowire biosensors for label-free, real-time, ultrasensitive protein detection. | Zheng G, Lieber CM | Methods in molecular biology (Clifton, N.J.) | 21948419 | Methods Mol Biol | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21948419 |
| Synthesis of monolithic graphene-graphite integrated electronics. | Park JU, Nam S, Lee MS, Lieber CM | Nature materials | 22101813 | Nat Mater | 2011 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/22101813 |
| Frequency domain detection of biomolecules using silicon nanowire biosensors. | Zheng G, Gao XP, Lieber CM | Nano letters | 20698634 | Nano Lett | 2010 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/20698634 |
| Tuning the Thickness and Orientation of Single Au Pyramids for Improved Refractive Index Sensitivities. | Lee J, Hasan W, Odom TW | The journal of physical chemistry. C, Nanomaterials and interfaces | 20157343 | J Phys Chem C Nanomater Interfaces | 2009 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/20157343 |
| Gold Nanopyramids Assembled into High-Order Stacks Exhibit Increased SERS Response. | Stoerzinger KA, Hasan W, Lin JY, Robles A, Odom TW | The journal of physical chemistry letters | 21666758 | J Phys Chem Lett | 2010 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/21666758 |
| Direct observation of nanoparticle-cancer cell nucleus interactions. | Dam DH, Lee JH, Sisco PN, Co DT, Zhang M, Wasielewski MR, Odom TW | ACS nano | 22424173 | ACS Nano | 2012 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/22424173 |
| A Markedly Improved Synthetic Approach for the Preparation of Multifunctional Au-DNA Nanoparticle Conjugates Modified with Optical and MR Imaging Probes. | Rotz MW, Holbrook RJ, MacRenaris KW, Meade TJ | Bioconjugate chemistry | 30193061 | Bioconjug Chem | 2018 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/30193061 |
| Grafting aptamers onto gold nanostars increases in vitro efficacy in a wide range of cancer cell types. | Dam DH, Culver KS, Odom TW | Molecular pharmaceutics | 24422969 | Mol Pharm | 2014 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/24422969 |
| Tailoring the structure of nanopyramids for optimal heat generation. | Hasan W, Stender CL, Lee MH, Nehl CL, Lee J | Nano letters | 19271715 | Nano Lett | 2009 Apr | https://www.ncbi.nlm.nih.gov/pubmed/19271715 |
| Enhanced optical transmission mediated by localized plasmons in anisotropic, three-dimensional nanohole arrays. | Yang JC, Gao H, Suh JY, Zhou W, Lee MH, Odom TW | Nano letters | 20698633 | Nano Lett | 2010 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/20698633 |
| High relaxivity Gd(III)-DNA gold nanostars: investigation of shape effects on proton relaxation. | Rotz MW, Culver KS, Parigi G, MacRenaris KW, Luchinat C, Odom TW, Meade TJ | ACS nano | 25723190 | ACS Nano | 2015 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/25723190 |
| Nanoparticle SERS substrates with 3D Raman-active volumes. | Stoerzinger KA, Lin JY, Odom TW | Chemical science | 23997929 | Chem Sci | 2011 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/23997929 |
| Optical Properties of Nested Pyramidal Nanoshells. | Lin JY, Hasan W, Yang JC, Odom TW | The journal of physical chemistry. C, Nanomaterials and interfaces | 20431688 | J Phys Chem C Nanomater Interfaces | 2010 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/20431688 |
| Talbot effect beyond the paraxial limit at optical frequencies. | Hua Y, Suh JY, Zhou W, Huntington MD, Odom TW | Optics express | 22714490 | Opt Express | 2012 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/22714490 |
| Broadband plasmonic microlenses based on patches of nanoholes. | Gao H, Hyun JK, Lee MH, Yang JC, Lauhon LJ, Odom TW | Nano letters | 20839781 | Nano Lett | 2010 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/20839781 |
| Extraordinary nonlinear absorption in 3D bowtie nanoantennas. | Suh JY, Huntington MD, Kim CH, Zhou W, Wasielewski MR, Odom TW | Nano letters | 22149352 | Nano Lett | 2012 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/22149352 |
| A Three-Channel Spectrometer for Wide-Field Imaging of Anisotropic Plasmonic Nanoparticles. | Sweeney CM, Nehl CL, Hasan W, Liang T, Eckermann A, Meade TJ, Odom TW | The journal of physical chemistry. C, Nanomaterials and interfaces | 21927639 | J Phys Chem C Nanomater Interfaces | 2011 Aug 18 | https://www.ncbi.nlm.nih.gov/pubmed/21927639 |
| Shining light on nuclear-targeted therapy using gold nanostar constructs. | Dam DH, Culver KS, Sisco PN, Odom TW | Therapeutic delivery | 23259247 | Ther Deliv | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23259247 |
| Optical properties of anisotropic core-shell pyramidal particles. | Sweeney CM, Hasan W, Nehl CL, Odom TW | The journal of physical chemistry. A | 19290590 | J Phys Chem A | 2009 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/19290590 |
| Improved in vitro efficacy of gold nanoconstructs by increased loading of G-quadruplex aptamer. | Dam DH, Lee RC, Odom TW | Nano letters | 24689438 | Nano Lett | 2014 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/24689438 |
| Biodistribution and in vivo toxicity of aptamer-loaded gold nanostars. | Dam DH, Culver KS, Kandela I, Lee RC, Chandra K, Lee H, Mantis C, Ugolkov A, Mazar AP, Odom TW | Nanomedicine : nanotechnology, biology, and medicine | 25461281 | Nanomedicine | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25461281 |
| Nanowire electrodes for high-density stimulation and measurement of neural circuits. | Robinson JT, Jorgolli M, Park H | Frontiers in neural circuits | 23486552 | Front Neural Circuits | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23486552 |
| Nanowire-mediated delivery enables functional interrogation of primary immune cells: application to the analysis of chronic lymphocytic leukemia. | Shalek AK, Gaublomme JT, Wang L, Yosef N, Chevrier N, Andersen MS, Robinson JT, Pochet N, Neuberg D, Gertner RS, Amit I, Brown JR, Hacohen N, Regev A, Wu CJ, Park H | Nano letters | 23190424 | Nano Lett | 2012 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/23190424 |
| Somatic mutation as a mechanism of Wnt/β-catenin pathway activation in CLL. | Wang L, Shalek AK, Lawrence M, Ding R, Gaublomme JT, Pochet N, Stojanov P, Sougnez C, Shukla SA, Stevenson KE, Zhang W, Wong J, Sievers QL, MacDonald BT, Vartanov AR, Goldstein NR, Neuberg D, He X, Lander E, Hacohen N, Regev A, Getz G, Brown JR, Park H, Wu CJ | Blood | 24778153 | Blood | 2014 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/24778153 |
| Nanometre-scale thermometry in a living cell. | Kucsko G, Maurer PC, Yao NY, Kubo M, Noh HJ, Lo PK, Park H, Lukin MD | Nature | 23903748 | Nature | 2013 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/23903748 |
| Probing enzymatic activity inside living cells using a nanowire-cell "sandwich" assay. | Na YR, Kim SY, Gaublomme JT, Shalek AK, Jorgolli M, Park H, Yang EG | Nano letters | 23244056 | Nano Lett | 2013 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/23244056 |
| Vertical nanowire electrode arrays as a scalable platform for intracellular interfacing to neuronal circuits. | Robinson JT, Jorgolli M, Shalek AK, Yoon MH, Gertner RS, Park H | Nature nanotechnology | 22231664 | Nat Nanotechnol | 2012 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/22231664 |
| A nanoelectrode array for obtaining intracellular recordings from thousands of connected neurons. | Abbott J, Ye T, Krenek K, Gertner RS, Ban S, Kim Y, Qin L, Wu W, Park H, Ham D | Nature biomedical engineering | 31548592 | Nat Biomed Eng | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31548592 |
| Induction of protein-protein interactions in live cells using light. | Yazawa M, Sadaghiani AM, Hsueh B, Dolmetsch RE | Nature biotechnology | 19801976 | Nat Biotechnol | 2009 Oct | https://www.ncbi.nlm.nih.gov/pubmed/19801976 |
| 16p11.2 Deletion Syndrome Mice Display Sensory and Ultrasonic Vocalization Deficits During Social Interactions. | Yang M, Mahrt EJ, Lewis F, Foley G, Portmann T, Dolmetsch RE, Portfors CV, Crawley JN | Autism research : official journal of the International Society for Autism Research | 25663600 | Autism Res | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25663600 |
| Timothy syndrome is associated with activity-dependent dendritic retraction in rodent and human neurons. | Krey JF, Paşca SP, Shcheglovitov A, Yazawa M, Schwemberger R, Rasmusson R, Dolmetsch RE | Nature neuroscience | 23313911 | Nat Neurosci | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23313911 |
| Identification of Orai1 channel inhibitors by using minimal functional domains to screen small molecule microarrays. | Sadaghiani AM, Lee SM, Odegaard JI, Leveson-Gower DB, McPherson OM, Novick P, Kim MR, Koehler AN, Negrin R, Dolmetsch RE, Park CY | Chemistry & biology | 25308275 | Chem Biol | 2014 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/25308275 |
| Using light to control signaling cascades in live neurons. | Rana A, Dolmetsch RE | Current opinion in neurobiology | 20850295 | Curr Opin Neurobiol | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20850295 |
| Aberrant calcium channel splicing drives defects in cortical differentiation in Timothy syndrome. | Panagiotakos G, Haveles C, Arjun A, Petrova R, Rana A, Portmann T, Paşca SP, Palmer TD, Dolmetsch RE | eLife | 31868578 | Elife | 2019 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/31868578 |
| The CRAC channel activator STIM1 binds and inhibits L-type voltage-gated calcium channels. | Park CY, Shcheglovitov A, Dolmetsch R | Science (New York, N.Y.) | 20929812 | Science | 2010 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/20929812 |
| Using induced pluripotent stem cells to investigate cardiac phenotypes in Timothy syndrome. | Yazawa M, Hsueh B, Jia X, Pasca AM, Bernstein JA, Hallmayer J, Dolmetsch RE | Nature | 21307850 | Nature | 2011 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/21307850 |
| PIKfyve mediates the motility of late endosomes and lysosomes in neuronal dendrites. | Tsuruta F, Dolmetsch RE | Neuroscience letters | 26232680 | Neurosci Lett | 2015 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/26232680 |
| SHANK3 and IGF1 restore synaptic deficits in neurons from 22q13 deletion syndrome patients. | Shcheglovitov A, Shcheglovitova O, Yazawa M, Portmann T, Shu R, Sebastiano V, Krawisz A, Froehlich W, Bernstein JA, Hallmayer JF, Dolmetsch RE | Nature | 24132240 | Nature | 2013 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/24132240 |
| Generating human neurons in vitro and using them to understand neuropsychiatric disease. | Paşca SP, Panagiotakos G, Dolmetsch RE | Annual review of neuroscience | 25002278 | Annu Rev Neurosci | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25002278 |
| Using iPSC-derived neurons to uncover cellular phenotypes associated with Timothy syndrome. | Paşca SP, Portmann T, Voineagu I, Yazawa M, Shcheglovitov A, Paşca AM, Cord B, Palmer TD, Chikahisa S, Nishino S, Bernstein JA, Hallmayer J, Geschwind DH, Dolmetsch RE | Nature medicine | 22120178 | Nat Med | 2011 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/22120178 |
| Modeling Timothy syndrome with iPS cells. | Yazawa M, Dolmetsch RE | Journal of cardiovascular translational research | 23299782 | J Cardiovasc Transl Res | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23299782 |
| In vitro human corticogenesis. | Wang Y, Dolmetsch R | Neuron | 23395367 | Neuron | 2013 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/23395367 |
| STIM1 and calmodulin interact with Orai1 to induce Ca2+-dependent inactivation of CRAC channels. | Mullins FM, Park CY, Dolmetsch RE, Lewis RS | Proceedings of the National Academy of Sciences of the United States of America | 19706428 | Proc Natl Acad Sci U S A | 2009 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/19706428 |
| Direct in vivo assessment of human stem cell graft-host neural circuits. | Byers B, Lee HJ, Liu J, Weitz AJ, Lin P, Zhang P, Shcheglovitov A, Dolmetsch R, Pera RR, Lee JH | NeuroImage | 25936696 | Neuroimage | 2015 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/25936696 |
| The developmental transcriptome of the mosquito Aedes aegypti, an invasive species and major arbovirus vector. | Akbari OS, Antoshechkin I, Amrhein H, Williams B, Diloreto R, Sandler J, Hay BA | G3 (Bethesda, Md.) | 23833213 | G3 (Bethesda) | 2013 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/23833213 |
| A synthetic gene drive system for local, reversible modification and suppression of insect populations. | Akbari OS, Matzen KD, Marshall JM, Huang H, Ward CM, Hay BA | Current biology : CB | 23541732 | Curr Biol | 2013 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/23541732 |
| Engineering the genomes of wild insect populations: challenges, and opportunities provided by synthetic Medea selfish genetic elements. | Hay BA, Chen CH, Ward CM, Huang H, Su JT, Guo M | Journal of insect physiology | 20570677 | J Insect Physiol | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20570677 |
| Identification of germline transcriptional regulatory elements in Aedes aegypti. | Akbari OS, Papathanos PA, Sandler JE, Kennedy K, Hay BA | Scientific reports | 24492376 | Sci Rep | 2014 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/24492376 |
| Inverse Medea as a novel gene drive system for local population replacement: a theoretical analysis. | Marshall JM, Hay BA | The Journal of heredity | 21493596 | J Hered | 2011 May-Jun | https://www.ncbi.nlm.nih.gov/pubmed/21493596 |
| General principles of single-construct chromosomal gene drive. | Marshall JM, Hay BA | Evolution; international journal of organic evolution | 22759292 | Evolution | 2012 Jul | https://www.ncbi.nlm.nih.gov/pubmed/22759292 |
| A drug-inducible sex-separation technique for insects. | Kandul NP, Liu J, Hsu AD, Hay BA, Akbari OS | Nature communications | 32355156 | Nat Commun | 2020 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/32355156 |
| Semele: a killer-male, rescue-female system for suppression and replacement of insect disease vector populations. | Marshall JM, Pittman GW, Buchman AB, Hay BA | Genetics | 21078687 | Genetics | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21078687 |
| The toxin and antidote puzzle: new ways to control insect pest populations through manipulating inheritance. | Marshall JM | Bioengineered bugs | 21876382 | Bioeng Bugs | 2011 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/21876382 |
| Confinement of gene drive systems to local populations: a comparative analysis. | Marshall JM, Hay BA | Journal of theoretical biology | 22094363 | J Theor Biol | 2012 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/22094363 |
| Medea selfish genetic elements as tools for altering traits of wild populations: a theoretical analysis. | Ward CM, Su JT, Huang Y, Lloyd AL, Gould F, Hay BA | Evolution; international journal of organic evolution | 21062278 | Evolution | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21062278 |
| Modelling to contain pandemics. | Epstein JM | Nature | 19661897 | Nature | 2009 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/19661897 |
| The Emergence and Collapse of Knowledge Boundaries. | Broniatowski DA, Magee CL | IEEE transactions on engineering management | 29255326 | IEEE Trans Eng Manag | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29255326 |
| Recasting the theory of mosquito-borne pathogen transmission dynamics and control. | Smith DL, Perkins TA, Reiner RC Jr, Barker CM, Niu T, Chaves LF, Ellis AM, George DB, Le Menach A, Pulliam JR, Bisanzio D, Buckee C, Chiyaka C, Cummings DA, Garcia AJ, Gatton ML, Gething PW, Hartley DM, Johnston G, Klein EY, Michael E, Lloyd AL, Pigott DM, Reisen WK, Ruktanonchai N, Singh BK, Stoller J, Tatem AJ, Kitron U, Godfray HC, Cohen JM, Hay SI, Scott TW | Transactions of the Royal Society of Tropical Medicine and Hygiene | 24591453 | Trans R Soc Trop Med Hyg | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24591453 |
| A formal model of fuzzy-trace theory: Variations on framing effects and the Allais paradox. | Broniatowski DA, Reyna VF | Decision (Washington, D.C.) | 30320145 | Decision (Wash D C ) | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30320145 |
| Cooperation in Harsh Environments and the Emergence of Spatial Patterns. | Smaldino PE | Chaos, solitons, and fractals | 24277977 | Chaos Solitons Fractals | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24277977 |
| On the problem of boundaries and scaling for urban street networks. | Masucci AP, Arcaute E, Hatna E, Stanilov K, Batty M | Journal of the Royal Society, Interface | 26468071 | J R Soc Interface | 2015 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/26468071 |
| An agent-based model of centralized institutions, social network technology, and revolution. | Makowsky MD, Rubin J | PloS one | 24278280 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24278280 |
| Simulating the evolution of the human family: cooperative breeding increases in harsh environments. | Smaldino PE, Newson L, Schank JC, Richerson PJ | PloS one | 24278318 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24278318 |
| The impact of heterogeneous transmission on the establishment and spread of antimalarial drug resistance. | Klein EY | Journal of theoretical biology | 24076451 | J Theor Biol | 2014 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/24076451 |
| Trends in antibiotic resistance in coagulase-negative staphylococci in the United States, 1999 to 2012. | May L, Klein EY, Rothman RE, Laxminarayan R | Antimicrobial agents and chemotherapy | 24342646 | Antimicrob Agents Chemother | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24342646 |
| Combining Computational Fluid Dynamics and Agent-Based Modeling: a new approach to evacuation planning. | Epstein JM, Pankajakshan R, Hammond RA | PloS one | 21687788 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21687788 |
| Constructing cities, deconstructing scaling laws. | Arcaute E, Hatna E, Ferguson P, Youn H, Johansson A, Batty M | Journal of the Royal Society, Interface | 25411405 | J R Soc Interface | 2015 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/25411405 |
| Germs are germs, and why not take a risk? Patients' expectations for prescribing antibiotics in an inner-city emergency department. | Broniatowski DA, Klein EY, Reyna VF | Medical decision making : an international journal of the Society for Medical Decision Making | 25331913 | Med Decis Making | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25331913 |
| A Distributed Platform for Global-Scale Agent-Based Models of Disease Transmission. | Parker J, Epstein JM | ACM transactions on modeling and computer simulation : a publication of the Association for Computing Machinery | 24465120 | ACM Trans Model Comput Simul | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24465120 |
| The Determinants of Federal and State Enforcement of Workplace Safety Regulations: OSHA Inspections 1990-2010. | Jung J, Makowsky MD | Journal of regulatory economics | 24659856 | J Regul Econ | 2014 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/24659856 |
| Influenza A H1N1 pandemic strain evolution--divergence and the potential for antigenic drift variants. | Klein EY, Serohijos AW, Choi JM, Shakhnovich EI, Pekosz A | PloS one | 24699432 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24699432 |
| Cross-reactive immune responses as primary drivers of malaria chronicity. | Klein EY, Graham AL, Llinás M, Levin S | Infection and immunity | 24126530 | Infect Immun | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24126530 |
| Coupled contagion dynamics of fear and disease: mathematical and computational explorations. | Epstein JM, Parker J, Cummings D, Hammond RA | PloS one | 19079607 | PLoS One | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19079607 |
| National and local influenza surveillance through Twitter: an analysis of the 2012-2013 influenza epidemic. | Broniatowski DA, Paul MJ, Dredze M | PloS one | 24349542 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24349542 |
| Institutions and cooperation in an ecology of games. | Smaldino PE, Lubell M | Artificial life | 24494613 | Artif Life | 2014 Spring | https://www.ncbi.nlm.nih.gov/pubmed/24494613 |
| The cultural evolution of emergent group-level traits. | Smaldino PE | The Behavioral and brain sciences | 24970399 | Behav Brain Sci | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24970399 |
| Endogenous Group Formation via Unproductive Costs. | Aimone JA, Iannaccone LR, Makowsky MD, Rubin J | The Review of economic studies | 24808623 | Rev Econ Stud | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24808623 |
| Twitter: big data opportunities. | Broniatowski DA, Paul MJ, Dredze M | Science (New York, N.Y.) | 25013052 | Science | 2014 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/25013052 |
| Mechanism of automaticity in cardiomyocytes derived from human induced pluripotent stem cells. | Kim JJ, Yang L, Lin B, Zhu X, Sun B, Kaplan AD, Bett GC, Rasmusson RL, London B, Salama G | Journal of molecular and cellular cardiology | 25644533 | J Mol Cell Cardiol | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25644533 |
| The many faces of repolarization instability: which one is prognostic? | Shusterman V, Lampert R, London B | Journal of electrocardiology | 19717165 | J Electrocardiol | 2009 Nov-Dec | https://www.ncbi.nlm.nih.gov/pubmed/19717165 |
| Magnetic Resonance Imaging of Contracting Ultrathin Cardiac Tissue. | Shusterman V, Nagpal P, Thedens D, Zhu X, Matasic DS, Yoon JY, Morgan G, Hoffman S, London B | Biomedical physics & engineering express | 32733693 | Biomed Phys Eng Express | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32733693 |
| Acoustic radiation force for vascular cell therapy: in vitro validation. | Kaya M, Toma C, Wang J, Grata M, Fu H, Villanueva FS, Chen X | Ultrasound in medicine & biology.. | 22975034 | Ultrasound Med Biol | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/22975034 |
| Homozygous missense N629D hERG (KCNH2) potassium channel mutation causes developmental defects in the right ventricle and its outflow tract and embryonic lethality. | Teng GQ, Zhao X, Lees-Miller JP, Quinn FR, Li P, Rancourt DE, London B, Cross JC, Duff HJ | Circulation research | 18948620 | Circ Res | 2008 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/18948620 |
| Targeting device therapy: genomics of sudden death. | Frangiskakis JM, London B | Heart failure clinics | 19945065 | Heart Fail Clin | 2010 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19945065 |
| High-energy external defibrillation and transcutaneous pacing during MRI: feasibility and safety. | Shusterman V, Hodgson-Zingman D, Thedens D, Zhu X, Hoffman S, Sieren JC, Morgan GM, Faranesh A, London B | Journal of cardiovascular magnetic resonance : official journal of the Society for Cardiovascular Magnetic Resonance | 31378203 | J Cardiovasc Magn Reson | 2019 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/31378203 |
| Prion propagation can occur in a prokaryote and requires the ClpB chaperone. | Yuan AH, Garrity SJ, Nako E, Hochschild A | eLife | 25122461 | Elife | 2014 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/25122461 |
| A bacterial export system for generating extracellular amyloid aggregates. | Sivanathan V, Hochschild A | Nature protocols | 23787895 | Nat Protoc | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23787895 |
| Genetic reporter system for positioning of proteins at the bacterial pole. | Fixen KR, Janakiraman A, Garrity S, Slade DJ, Gray AN, Karahan N, Hochschild A, Goldberg MB | mBio | 22375072 | mBio | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22375072 |
| CbtA toxin of Escherichia coli inhibits cell division and cell elongation via direct and independent interactions with FtsZ and MreB. | Heller DM, Tavag M, Hochschild A | PLoS genetics | 28931012 | PLoS Genet | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28931012 |
| Generating extracellular amyloid aggregates using E. coli cells. | Sivanathan V, Hochschild A | Genes & development | 23166018 | Genes Dev | 2012 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/23166018 |
| Conversion of a yeast prion protein to an infectious form in bacteria. | Garrity SJ, Sivanathan V, Dong J, Lindquist S, Hochschild A | Proceedings of the National Academy of Sciences of the United States of America | 20484678 | Proc Natl Acad Sci U S A | 2010 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/20484678 |
| Atomic insights into the genesis of cellular filaments by globular proteins. | McPartland L, Heller DM, Eisenberg DS, Hochschild A, Sawaya MR | Nature structural & molecular biology | 30076408 | Nat Struct Mol Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30076408 |
| A bacterial global regulator forms a prion. | Yuan AH, Hochschild A | Science (New York, N.Y.) | 28082594 | Science | 2017 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/28082594 |
| The BAH domain of ORC1 links H4K20me2 to DNA replication licensing and Meier-Gorlin syndrome. | Kuo AJ, Song J, Cheung P, Ishibe-Murakami S, Yamazoe S, Chen JK, Patel DJ, Gozani O | Nature | 22398447 | Nature | 2012 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/22398447 |
| Spatiotemporal resolution of the Ntla transcriptome in axial mesoderm development. | Shestopalov IA, Pitt CL, Chen JK | Nature chemical biology | 22286130 | Nat Chem Biol | 2012 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/22286130 |
| Synthetic strategies for studying embryonic development. | Ouyang X, Chen JK | Chemistry & biology | 20609409 | Chem Biol | 2010 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/20609409 |
| Cyclic caged morpholinos: conformationally gated probes of embryonic gene function. | Yamazoe S, Shestopalov IA, Provost E, Leach SD, Chen JK | Angewandte Chemie (International ed. in English) | 22689470 | Angew Chem Int Ed Engl | 2012 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/22689470 |
| Oligonucleotide-based tools for studying zebrafish development. | Shestopalov IA, Chen JK | Zebrafish | 20392138 | Zebrafish | 2010 Mar | https://www.ncbi.nlm.nih.gov/pubmed/20392138 |
| Spatiotemporal control of embryonic gene expression using caged morpholinos. | Shestopalov IA, Chen JK | Methods in cell biology | 21924162 | Methods Cell Biol | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21924162 |
| Controlling destiny through chemistry: small-molecule regulators of cell fate. | Firestone AJ, Chen JK | ACS chemical biology | 20000447 | ACS Chem Biol | 2010 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/20000447 |
| Global discovery of adaptive mutations. | Goodarzi H, Hottes AK, Tavazoie S | Nature methods | 19597501 | Nat Methods | 2009 Aug | https://www.ncbi.nlm.nih.gov/pubmed/19597501 |
| Fitness landscape of antibiotic tolerance in Pseudomonas aeruginosa biofilms. | Amini S, Hottes AK, Smith LE, Tavazoie S | PLoS pathogens | 22028649 | PLoS Pathog | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22028649 |
| Genetic dissection of an exogenously induced biofilm in laboratory and clinical isolates of E. coli. | Amini S, Goodarzi H, Tavazoie S | PLoS pathogens | 19436718 | PLoS Pathog | 2009 May | https://www.ncbi.nlm.nih.gov/pubmed/19436718 |
| Predictive behavior within microbial genetic networks. | Tagkopoulos I, Liu YC, Tavazoie S | Science (New York, N.Y.) | 18467556 | Science | 2008 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/18467556 |
| Regulatory and metabolic rewiring during laboratory evolution of ethanol tolerance in E. coli. | Goodarzi H, Bennett BD, Amini S, Reaves ML, Hottes AK, Rabinowitz JD, Tavazoie S | Molecular systems biology | 20531407 | Mol Syst Biol | 2010 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/20531407 |
| Synaptic state matching: a dynamical architecture for predictive internal representation and feature detection. | Tavazoie S | PloS one | 23991161 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23991161 |
| Beyond homeostasis: a predictive-dynamic framework for understanding cellular behavior. | Freddolino L, Tavazoie S | Annual review of cell and developmental biology | 22559263 | Annu Rev Cell Dev Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22559263 |
| Genetic architecture of intrinsic antibiotic susceptibility. | Girgis HS, Hottes AK, Tavazoie S | PloS one | 19462005 | PLoS One | 2009 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/19462005 |
| Systematic discovery of structural elements governing stability of mammalian messenger RNAs. | Goodarzi H, Najafabadi HS, Oikonomou P, Greco TM, Fish L, Salavati R, Cristea IM, Tavazoie S | Nature | 22495308 | Nature | 2012 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/22495308 |
| Revealing global regulatory perturbations across human cancers. | Goodarzi H, Elemento O, Tavazoie S | Molecular cell | 20005852 | Mol Cell | 2009 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/20005852 |
| Protein occupancy landscape of a bacterial genome. | Vora T, Hottes AK, Tavazoie S | Molecular cell | 19647521 | Mol Cell | 2009 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/19647521 |
| Prolonged Period of Cortical Plasticity upon Redox Dysregulation in Fast-Spiking Interneurons. | Morishita H, Cabungcal JH, Chen Y, Do KQ, Hensch TK | Biological psychiatry | 25758057 | Biol Psychiatry | 2015 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/25758057 |
| Early Seizures Prematurely Unsilence Auditory Synapses to Disrupt Thalamocortical Critical Period Plasticity. | Sun H, Takesian AE, Wang TT, Lippman-Bell JJ, Hensch TK, Jensen FE | Cell reports | 29847785 | Cell Rep | 2018 May 29 | https://www.ncbi.nlm.nih.gov/pubmed/29847785 |
| Calculation of electrostatic effects at the amino terminus of an alpha helix. | Sitkoff D, Lockhart DJ, Sharp KA, Honig B | Biophysical journal | 7696466 | Biophys J | 1994 Dec | https://www.ncbi.nlm.nih.gov/pubmed/7696466 |
| Lynx1, a cholinergic brake, limits plasticity in adult visual cortex. | Morishita H, Miwa JM, Heintz N, Hensch TK | Science (New York, N.Y.) | 21071629 | Science | 2010 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/21071629 |
| Excitatory projection neuron subtypes control the distribution of local inhibitory interneurons in the cerebral cortex. | Lodato S, Rouaux C, Quast KB, Jantrachotechatchawan C, Studer M, Hensch TK, Arlotta P | Neuron | 21338885 | Neuron | 2011 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/21338885 |
| NMDA receptor regulation prevents regression of visual cortical function in the absence of Mecp2. | Durand S, Patrizi A, Quast KB, Hachigian L, Pavlyuk R, Saxena A, Carninci P, Hensch TK, Fagiolini M | Neuron | 23259945 | Neuron | 2012 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/23259945 |
| Otx2 binding to perineuronal nets persistently regulates plasticity in the mature visual cortex. | Beurdeley M, Spatazza J, Lee HH, Sugiyama S, Bernard C, Di Nardo AA, Hensch TK, Prochiantz A | The Journal of neuroscience : the official journal of the Society for Neuroscience | 22764251 | J Neurosci | 2012 Jul 4 | https://www.ncbi.nlm.nih.gov/pubmed/22764251 |
| Analytical approaches to RNA profiling data for the identification of genes enriched in specific cells. | Dougherty JD, Schmidt EF, Nakajima M, Heintz N | Nucleic acids research | 20308160 | Nucleic Acids Res | 2010 Jul | https://www.ncbi.nlm.nih.gov/pubmed/20308160 |
| From brain formation to plasticity: insights on Otx2 homeoprotein. | Sugiyama S, Prochiantz A, Hensch TK | Development, growth & differentiation | 19298552 | Dev Growth Differ | 2009 Apr | https://www.ncbi.nlm.nih.gov/pubmed/19298552 |
| Choroid-plexus-derived Otx2 homeoprotein constrains adult cortical plasticity. | Spatazza J, Lee HH, Di Nardo AA, Tibaldi L, Joliot A, Hensch TK, Prochiantz A | Cell reports | 23770240 | Cell Rep | 2013 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/23770240 |
| Sensory integration in mouse insular cortex reflects GABA circuit maturation. | Gogolla N, Takesian AE, Feng G, Fagiolini M, Hensch TK | Neuron | 25088363 | Neuron | 2014 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/25088363 |
| Characterizing nonlinear heartbeat dynamics within a point process framework. | Chen Z, Brown EN, Barbieri R | IEEE transactions on bio-medical engineering | 20172783 | IEEE Trans Biomed Eng | 2010 Jun | https://www.ncbi.nlm.nih.gov/pubmed/20172783 |
| State-space algorithms for estimating spike rate functions. | Smith AC, Scalon JD, Wirth S, Yanike M, Suzuki WA, Brown EN | Computational intelligence and neuroscience | 19911062 | Comput Intell Neurosci | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/19911062 |
| Dynamic Cardiovagal Response to Motion Sickness: A Point-Process Heart Rate Variability Study. | Lacount L, Napadow V, Kuo B, Park K, Kim J, Brown E, Barbieri R | Computers in cardiology | 20445767 | Comput Cardiol | 2009 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/20445767 |
| Assessment of autonomic control and respiratory sinus arrhythmia using point process models of human heart beat dynamics. | Chen Z, Brown EN, Barbieri R | IEEE transactions on bio-medical engineering | 19272971 | IEEE Trans Biomed Eng | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19272971 |
| General anesthesia and altered states of arousal: a systems neuroscience analysis. | Brown EN, Purdon PL, Van Dort CJ | Annual review of neuroscience | 21513454 | Annu Rev Neurosci | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21513454 |
| Uncovering spatial topology represented by rat hippocampal population neuronal codes. | Chen Z, Kloosterman F, Brown EN, Wilson MA | Journal of computational neuroscience | 22307459 | J Comput Neurosci | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22307459 |
| Robust time-varying multivariate coherence estimation: application to electroencephalogram recordings during general anesthesia. | Wong KF, Mukamel EA, Salazar AF, Pierce ET, Harrell PG, Walsh JL, Sampson A, Brown EN, Purdon PL | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22255393 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22255393 |
| Quantification of the benefit from integrating MEG and EEG data in minimum l2-norm estimation. | Molins A, Stufflebeam SM, Brown EN, Hämäläinen MS | NeuroImage | 18602485 | Neuroimage | 2008 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/18602485 |
| Simultaneous electroencephalography and functional magnetic resonance imaging of general anesthesia. | Purdon PL, Pierce ET, Bonmassar G, Walsh J, Harrell PG, Kwo J, Deschler D, Barlow M, Merhar RC, Lamus C, Mullaly CM, Sullivan M, Maginnis S, Skoniecki D, Higgins HA, Brown EN | Annals of the New York Academy of Sciences | 19351356 | Ann N Y Acad Sci | 2009 Mar | https://www.ncbi.nlm.nih.gov/pubmed/19351356 |
| Differential involvement of excitatory and inhibitory neurons of cat motor cortex in coincident spike activity related to behavioral context. | Putrino D, Brown EN, Mastaglia FL, Ghosh S | The Journal of neuroscience : the official journal of the Society for Neuroscience | 20534853 | J Neurosci | 2010 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/20534853 |
| The Fitzhugh-Nagumo model: Firing modes with time-varying parameters & parameter estimation. | Faghih RT, Savla K, Dahleh MA, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 21096631 | Annu Int Conf IEEE Eng Med Biol Soc | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/21096631 |
| Psychophysiological signals associated with affective states. | Mauri M, Magagnin V, Cipresso P, Mainardi L, Brown EN, Cerutti S, Villamira M, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 21096828 | Annu Int Conf IEEE Eng Med Biol Soc | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/21096828 |
| Statistical inference for assessing functional connectivity of neuronal ensembles with sparse spiking data. | Chen Z, Putrino DF, Ghosh S, Barbieri R, Brown EN | IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society | 20937583 | IEEE Trans Neural Syst Rehabil Eng | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20937583 |
| Dynamic assessment of baroreflex control of heart rate during induction of propofol anesthesia using a point process method. | Chen Z, Purdon PL, Harrell G, Pierce ET, Walsh J, Brown EN, Barbieri R | Annals of biomedical engineering | 20945159 | Ann Biomed Eng | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/20945159 |
| Assessment of Baroreflex Control of Heart Rate During General Anesthesia Using a Point Process Method. | Chen Z, Purdon P, Pierce E, Harrell G, Brown E, Barbieri R | Proceedings of the ... IEEE International Conference on Acoustics, Speech, and Signal Processing. ICASSP (Conference) | 20473342 | Proc IEEE Int Conf Acoust Speech Signal Process | 2009 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/20473342 |
| Nitrous oxide-induced slow and delta oscillations. | Pavone KJ, Akeju O, Sampson AL, Ling K, Purdon PL, Brown EN | Clinical neurophysiology : official journal of the International Federation of Clinical Neurophysiology | 26118489 | Clin Neurophysiol | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26118489 |
| Clinical Electroencephalography for Anesthesiologists: Part I: Background and Basic Signatures. | Purdon PL, Sampson A, Pavone KJ, Brown EN | Anesthesiology | 26275092 | Anesthesiology | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26275092 |
| In reply. | Purdon PL, Zhou DW, Akeju O, Brown EN | Anesthesiology | 26284863 | Anesthesiology | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26284863 |
| Quantifying Pituitary-Adrenal Dynamics and Deconvolution of Concurrent Cortisol and Adrenocorticotropic Hormone Data by Compressed Sensing. | Faghih RT, Dahleh MA, Adler GK, Klerman EB, Brown EN | IEEE transactions on bio-medical engineering | 25935025 | IEEE Trans Biomed Eng | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25935025 |
| Measuring the signal-to-noise ratio of a neuron. | Czanner G, Sarma SV, Ba D, Eden UT, Wu W, Eskandar E, Lim HH, Temereanca S, Suzuki WA, Brown EN | Proceedings of the National Academy of Sciences of the United States of America | 25995363 | Proc Natl Acad Sci U S A | 2015 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/25995363 |
| Real-time segmentation of burst suppression patterns in critical care EEG monitoring. | Brandon Westover M, Shafi MM, Ching S, Chemali JJ, Purdon PL, Cash SS, Brown EN | Journal of neuroscience methods | 23891828 | J Neurosci Methods | 2013 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/23891828 |
| A closed-loop anesthetic delivery system for real-time control of burst suppression. | Liberman MY, Ching S, Chemali J, Brown EN | Journal of neural engineering | 23744607 | J Neural Eng | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23744607 |
| Real-time closed-loop control in a rodent model of medically induced coma using burst suppression. | Ching S, Liberman MY, Chemali JJ, Westover MB, Kenny JD, Solt K, Purdon PL, Brown EN | Anesthesiology | 23770601 | Anesthesiology | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23770601 |
| Inferring evoked brain connectivity through adaptive perturbation. | Lepage KQ, Ching S, Kramer MA | Journal of computational neuroscience | 22990598 | J Comput Neurosci | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22990598 |
| Distributed control in a mean-field cortical network model: implications for seizure suppression. | Ching S, Brown EN, Kramer MA | Physical review. E, Statistical, nonlinear, and soft matter physics | 23005798 | Phys Rev E Stat Nonlin Soft Matter Phys | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23005798 |
| Beamforming approach to phase-amplitude modulation analysis of multi-channel EEG. | Sampson AL, Babadi B, Prerau MJ, Mukamel EA, Brown EN, Purdon PL | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23367474 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23367474 |
| A transition in brain state during propofol-induced unconsciousness. | Mukamel EA, Pirondini E, Babadi B, Wong KF, Pierce ET, Harrell PG, Walsh JL, Salazar-Gomez AF, Cash SS, Eskandar EN, Weiner VS, Brown EN, Purdon PL | The Journal of neuroscience : the official journal of the Society for Neuroscience | 24431442 | J Neurosci | 2014 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/24431442 |
| Modeling the dynamical effects of anesthesia on brain circuits. | Ching S, Brown EN | Current opinion in neurobiology | 24457211 | Curr Opin Neurobiol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24457211 |
| Mapping of visual receptive fields by tomographic reconstruction. | Pipa G, Chen Z, Neuenschwander S, Lima B, Brown EN | Neural computation | 22734491 | Neural Comput | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22734491 |
| Reference-free removal of EEG-fMRI ballistocardiogram artifacts with harmonic regression. | Krishnaswamy P, Bonmassar G, Poulsen C, Pierce ET, Purdon PL, Brown EN | NeuroImage | 26151100 | Neuroimage | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26151100 |
| Ageing delays emergence from general anaesthesia in rats by increasing anaesthetic sensitivity in the brain. | Chemali JJ, Kenny JD, Olutola O, Taylor NE, Kimchi EY, Purdon PL, Brown EN, Solt K | British journal of anaesthesia | 26174302 | Br J Anaesth | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26174302 |
| Probabilistic Common Spatial Patterns for Multichannel EEG Analysis. | Wu W, Chen Z, Gao X, Li Y, Brown EN, Gao S | IEEE transactions on pattern analysis and machine intelligence | 26005228 | IEEE Trans Pattern Anal Mach Intell | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26005228 |
| Disruption of thalamic functional connectivity is a neural correlate of dexmedetomidine-induced unconsciousness. | Akeju O, Loggia ML, Catana C, Pavone KJ, Vazquez R, Rhee J, Contreras Ramirez V, Chonde DB, Izquierdo-Garcia D, Arabasz G, Hsu S, Habeeb K, Hooker JM, Napadow V, Brown EN, Purdon PL | eLife | 25432022 | Elife | 2014 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/25432022 |
| Cognitive Impairment Is Associated with Absolute Intraoperative Frontal α-Band Power but Not with Baseline α-Band Power: A Pilot Study. | Koch S, Feinkohl I, Chakravarty S, Windmann V, Lichtner G, Pischon T, Brown EN, Spies C, BioCog Study Group | Dementia and geriatric cognitive disorders | 31578031 | Dement Geriatr Cogn Disord | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31578031 |
| Optogenetics and Chemogenetics. | Vlasov K, Van Dort CJ, Solt K | Methods in enzymology | 29673525 | Methods Enzymol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29673525 |
| Potential network mechanisms mediating electroencephalographic beta rhythm changes during propofol-induced paradoxical excitation. | McCarthy MM, Brown EN, Kopell N | The Journal of neuroscience : the official journal of the Society for Neuroscience | 19074022 | J Neurosci | 2008 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/19074022 |
| A probabilistic framework for learning robust common spatial patterns. | Wu W, Chen Z, Gao S, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19963618 | Annu Int Conf IEEE Eng Med Biol Soc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19963618 |
| Linear and nonlinear quantification of respiratory sinus arrhythmia during propofol general anesthesia. | Chen Z, Purdon PL, Pierce ET, Harrell G, Walsh J, Salazar AF, Tavares CL, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19963899 | Annu Int Conf IEEE Eng Med Biol Soc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19963899 |
| Interaction between Heart Rate Variability and Respiration in Preterm Infants. | Indic P, Salisbury E, Paydarfar D, Brown E, Barbieri R | Computers in cardiology | 20333264 | Comput Cardiol | 2008 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20333264 |
| Discrete- and continuous-time probabilistic models and algorithms for inferring neuronal UP and DOWN states. | Chen Z, Vijayan S, Barbieri R, Wilson MA, Brown EN | Neural computation | 19323637 | Neural Comput | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19323637 |
| Delayed orexin signaling consolidates wakefulness and sleep: physiology and modeling. | Diniz Behn CG, Kopell N, Brown EN, Mochizuki T, Scammell TE | Journal of neurophysiology | 18417630 | J Neurophysiol | 2008 Jun | https://www.ncbi.nlm.nih.gov/pubmed/18417630 |
| A differential autoregressive modeling approach within a point process framework for non-stationary heartbeat intervals analysis. | Chen Z, Purdon PL, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 21096829 | Annu Int Conf IEEE Eng Med Biol Soc | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/21096829 |
| Local cortical dynamics of burst suppression in the anaesthetized brain. | Lewis LD, Ching S, Weiner VS, Peterfreund RA, Eskandar EN, Cash SS, Brown EN, Purdon PL | Brain : a journal of neurology | 23887187 | Brain | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23887187 |
| Likelihood methods for point processes with refractoriness. | Citi L, Ba D, Brown EN, Barbieri R | Neural computation | 24206384 | Neural Comput | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24206384 |
| Burst suppression probability algorithms: state-space methods for tracking EEG burst suppression. | Chemali J, Ching S, Purdon PL, Solt K, Brown EN | Journal of neural engineering | 24018288 | J Neural Eng | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24018288 |
| A brain-machine interface for control of medically-induced coma. | Shanechi MM, Chemali JJ, Liberman M, Solt K, Brown EN | PLoS computational biology | 24204231 | PLoS Comput Biol | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24204231 |
| A spatially-regularized dynamic source localization algorithm for EEG. | Pirondini E, Babadi B, Lamus C, Brown EN, Purdon PL | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23367479 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23367479 |
| Understanding the TXA seizure connection. | Schwinn DA, Mackensen GB, Brown EN | The Journal of clinical investigation | 23187134 | J Clin Invest | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23187134 |
| State-space analysis of time-varying higher-order spike correlation for multiple neural spike train data. | Shimazaki H, Amari S, Brown EN, Grün S | PLoS computational biology | 22412358 | PLoS Comput Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22412358 |
| Active emergence from propofol general anesthesia is induced by methylphenidate. | Chemali JJ, Van Dort CJ, Brown EN, Solt K | Anesthesiology | 22446983 | Anesthesiology | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22446983 |
| A fast iterative greedy algorithm for MEG source localization. | Obregon-Henao G, Babadi B, Lamus C, Brown EN, Purdon PL | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23367478 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23367478 |
| Rapid fragmentation of neuronal networks at the onset of propofol-induced unconsciousness. | Lewis LD, Weiner VS, Mukamel EA, Donoghue JA, Eskandar EN, Madsen JR, Anderson WS, Hochberg LR, Cash SS, Brown EN, Purdon PL | Proceedings of the National Academy of Sciences of the United States of America | 23129622 | Proc Natl Acad Sci U S A | 2012 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/23129622 |
| Neural population partitioning and a concurrent brain-machine interface for sequential motor function. | Shanechi MM, Hu RC, Powers M, Wornell GW, Brown EN, Williams ZM | Nature neuroscience | 23143511 | Nat Neurosci | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23143511 |
| Activation of D1 dopamine receptors induces emergence from isoflurane general anesthesia. | Taylor NE, Chemali JJ, Brown EN, Solt K | Anesthesiology | 23221866 | Anesthesiology | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23221866 |
| The aging brain and anesthesia. | Brown EN, Purdon PL | Current opinion in anaesthesiology | 23820102 | Curr Opin Anaesthesiol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23820102 |
| Thalamocortical mechanisms for the anteriorization of α rhythms during propofol-induced unconsciousness. | Vijayan S, Ching S, Purdon PL, Brown EN, Kopell NJ | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23825412 | J Neurosci | 2013 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/23825412 |
| GABAA circuit mechanisms are associated with ether anesthesia-induced unconsciousness. | Akeju O, Hamilos AE, Song AH, Pavone KJ, Purdon PL, Brown EN | Clinical neurophysiology : official journal of the International Federation of Clinical Neurophysiology | 27178867 | Clin Neurophysiol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27178867 |
| Modulation depth estimation and variable selection in state-space models for neural interfaces. | Malik WQ, Hochberg LR, Donoghue JP, Brown EN | IEEE transactions on bio-medical engineering | 25265627 | IEEE Trans Biomed Eng | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25265627 |
| A Granger causality measure for point process models of ensemble neural spiking activity. | Kim S, Putrino D, Ghosh S, Brown EN | PLoS computational biology | 21455283 | PLoS Comput Biol | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21455283 |
| Tracking brain states under general anesthesia by using global coherence analysis. | Cimenser A, Purdon PL, Pierce ET, Walsh JL, Salazar-Gomez AF, Harrell PG, Tavares-Stoeckel C, Habeeb K, Brown EN | Proceedings of the National Academy of Sciences of the United States of America | 21555565 | Proc Natl Acad Sci U S A | 2011 May 24 | https://www.ncbi.nlm.nih.gov/pubmed/21555565 |
| Heart Rate Variability and Respiratory Sinus Arrhythmia Assessment of Affective States by Bivariate Autoregressive Spectral Analysis. | Magagnin V, Mauri M, Cipresso P, Mainardi L, Brown E, Cerutti S, Villamira M, Barbieri R | Computing in cardiology | 22158520 | Comput Cardiol (2010) | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/22158520 |
| A state-space model of the burst suppression ratio. | Chemali JJ, Wong KF, Solt K, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254587 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254587 |
| Correcting for serial dependence in studies of respiratory dynamics. | Gong JJ, Wong KF, Cotten JF, Solt K, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254658 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254658 |
| Statistical modeling of behavioral dynamics during propofol-induced loss of consciousness. | Wong KF, Smith AC, Pierce ET, Harrell PG, Walsh JL, Salazar-Gómez AF, Tavares CL, Purdon PL, Brown EN | Journal of neuroscience methods | 24530701 | J Neurosci Methods | 2014 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/24530701 |
| Human leg model predicts ankle muscle-tendon morphology, state, roles and energetics in walking. | Krishnaswamy P, Brown EN, Herr HM | PLoS computational biology | 21445231 | PLoS Comput Biol | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21445231 |
| A hierarchical Bayesian approach for learning sparse spatio-temporal decompositions of multichannel EEG. | Wu W, Chen Z, Gao S, Brown EN | NeuroImage | 21420499 | Neuroimage | 2011 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/21420499 |
| A Neurologic Examination for Anesthesiologists: Assessing Arousal Level during Induction, Maintenance, and Emergence. | Reshef ER, Schiff ND, Brown EN | Anesthesiology | 30664547 | Anesthesiology | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30664547 |
| Multi-sensory Gamma Stimulation Ameliorates Alzheimer's-Associated Pathology and Improves Cognition. | Martorell AJ, Paulson AL, Suk HJ, Abdurrob F, Drummond GT, Guan W, Young JZ, Kim DN, Kritskiy O, Barker SJ, Mangena V, Prince SM, Brown EN, Chung K, Boyden ES, Singer AC, Tsai LH | Cell | 30879788 | Cell | 2019 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/30879788 |
| A Prospective Study of Age-dependent Changes in Propofol-induced Electroencephalogram Oscillations in Children. | Lee JM, Akeju O, Terzakis K, Pavone KJ, Deng H, Houle TT, Firth PG, Shank ES, Brown EN, Purdon PL | Anesthesiology | 28657957 | Anesthesiology | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28657957 |
| The Role of Glutamatergic and Dopaminergic Neurons in the Periaqueductal Gray/Dorsal Raphe: Separating Analgesia and Anxiety. | Taylor NE, Pei J, Zhang J, Vlasov KY, Davis T, Taylor E, Weng FJ, Van Dort CJ, Solt K, Brown EN | eNeuro | 31058210 | eNeuro | 2019 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/31058210 |
| Brain correlates of autonomic modulation: combining heart rate variability with fMRI. | Napadow V, Dhond R, Conti G, Makris N, Brown EN, Barbieri R | NeuroImage | 18524629 | Neuroimage | 2008 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/18524629 |
| Activity in the barrel cortex during active behavior and sleep. | Vijayan S, Hale GJ, Moore CI, Brown EN, Wilson M | Journal of neurophysiology | 20164403 | J Neurophysiol | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20164403 |
| A point process model for auditory neurons considering both their intrinsic dynamics and the spectrotemporal properties of an extrinsic signal. | Plourde E, Delgutte B, Brown EN | IEEE transactions on bio-medical engineering | 21317068 | IEEE Trans Biomed Eng | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21317068 |
| Static and dynamic autonomic response with increasing nausea perception. | LaCount LT, Barbieri R, Park K, Kim J, Brown EN, Kuo B, Napadow V | Aviation, space, and environmental medicine | 21485400 | Aviat Space Environ Med | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21485400 |
| Assessment of cardio-respiratory interactions in preterm infants by bivariate autoregressive modeling and surrogate data analysis. | Indic P, Bloch-Salisbury E, Bednarek F, Brown EN, Paydarfar D, Barbieri R | Early human development | 21511413 | Early Hum Dev | 2011 Jul | https://www.ncbi.nlm.nih.gov/pubmed/21511413 |
| Denoising two-photon calcium imaging data. | Malik WQ, Schummers J, Sur M, Brown EN | PloS one | 21687727 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21687727 |
| A statistical model for multiphoton calcium imaging of the brain. | Malik WQ, Schummers J, Sur M, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19964727 | Annu Int Conf IEEE Eng Med Biol Soc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19964727 |
| Discrete time rescaling theorem: determining goodness of fit for discrete time statistical models of neural spiking. | Haslinger R, Pipa G, Brown E | Neural computation | 20608868 | Neural Comput | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20608868 |
| A Bayesian statistical analysis of behavioral facilitation associated with deep brain stimulation. | Smith AC, Shah SA, Hudson AE, Purpura KP, Victor JD, Brown EN, Schiff ND | Journal of neuroscience methods | 19576932 | J Neurosci Methods | 2009 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/19576932 |
| Instantaneous assessment of autonomic cardiovascular control during general anesthesia. | Chen Z, Citi L, Purdon PL, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22256307 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22256307 |
| A spatiotemporal dynamic distributed solution to the MEG inverse problem. | Lamus C, Hämäläinen MS, Temereanca S, Brown EN, Purdon PL | NeuroImage | 22155043 | Neuroimage | 2012 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/22155043 |
| A comparison of propofol- and dexmedetomidine-induced electroencephalogram dynamics using spectral and coherence analysis. | Akeju O, Pavone KJ, Westover MB, Vazquez R, Prerau MJ, Harrell PG, Hartnack KE, Rhee J, Sampson AL, Habeeb K, Gao L, Pierce ET, Walsh JL, Brown EN, Purdon PL | Anesthesiology | 25187999 | Anesthesiology | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25187999 |
| Adaptation to elastic loads and BMI robot controls during rat locomotion examined with point-process GLMs. | Song W, Cajigas I, Brown EN, Giszter SF | Frontiers in systems neuroscience | 25972789 | Front Syst Neurosci | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25972789 |
| Electroencephalogram signatures of loss and recovery of consciousness from propofol. | Purdon PL, Pierce ET, Mukamel EA, Prerau MJ, Walsh JL, Wong KF, Salazar-Gomez AF, Harrell PG, Sampson AL, Cimenser A, Ching S, Kopell NJ, Tavares-Stoeckel C, Habeeb K, Merhar R, Brown EN | Proceedings of the National Academy of Sciences of the United States of America | 23487781 | Proc Natl Acad Sci U S A | 2013 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/23487781 |
| Deconvolution of serum cortisol levels by using compressed sensing. | Faghih RT, Dahleh MA, Adler GK, Klerman EB, Brown EN | PloS one | 24489656 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24489656 |
| Phase-based measures of cross-frequency coupling in brain electrical dynamics under general anesthesia. | Mukamel EA, Wong KF, Prerau MJ, Brown EN, Purdon PL | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254722 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254722 |
| Point-process analysis of neural spiking activity of muscle spindles recorded from thin-film longitudinal intrafascicular electrodes. | Citi L, Djilas M, Azevedo-Coste C, Yoshida K, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254803 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254803 |
| Assessing neuronal interactions of cell assemblies during general anesthesia. | Chen Z, Vijayan S, Ching S, Hale G, Flores FJ, Wilson MA, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22255259 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22255259 |
| Bayesian analysis of trinomial data in behavioral experiments and its application to human studies of general anesthesia. | Wong KF, Smith AC, Pierce ET, Harrell PG, Walsh JL, Salazar AF, Tavares CL, Cimenser A, Prerau MJ, Mukamel EA, Sampson A, Purdon PL, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22255388 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22255388 |
| Reference-free harmonic regression technique to remove EEG-fMRI ballistocardiogram artifacts. | Krishnaswamy P, Bonmassar G, Purdon PL, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 24110963 | Annu Int Conf IEEE Eng Med Biol Soc | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24110963 |
| Real-time segmentation and tracking of brain metabolic state in ICU EEG recordings of burst suppression. | Westover MB, Ching S, Shafi MM, Cash SS, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 24111383 | Annu Int Conf IEEE Eng Med Biol Soc | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24111383 |
| Left-Lateralized Contributions of Saccades to Cortical Activity During a One-Back Word Recognition Task. | Chang YC, Khan S, Taulu S, Kuperberg G, Brown EN, Hämäläinen MS, Temereanca S | Frontiers in neural circuits | 29867372 | Front Neural Circuits | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29867372 |
| A real-time automated point-process method for the detection and correction of erroneous and ectopic heartbeats. | Citi L, Brown EN, Barbieri R | IEEE transactions on bio-medical engineering | 22875239 | IEEE Trans Biomed Eng | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22875239 |
| Assessing the effects of pharmacological agents on respiratory dynamics using time-series modeling. | Wong KF, Gong JJ, Cotten JF, Solt K, Brown EN | IEEE transactions on bio-medical engineering | 23193230 | IEEE Trans Biomed Eng | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23193230 |
| A unified point process probabilistic framework to assess heartbeat dynamics and autonomic cardiovascular control. | Chen Z, Purdon PL, Brown EN, Barbieri R | Frontiers in physiology | 22375120 | Front Physiol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22375120 |
| Transductive neural decoding for unsorted neuronal spikes of rat hippocampus. | Chen Z, Kloosterman F, Layton S, Wilson MA | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 23366139 | Annu Int Conf IEEE Eng Med Biol Soc | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23366139 |
| Physostigmine and Methylphenidate Induce Distinct Arousal States During Isoflurane General Anesthesia in Rats. | Kenny JD, Chemali JJ, Cotten JF, Van Dort CJ, Kim SE, Ba D, Taylor NE, Brown EN, Solt K | Anesthesia and analgesia | 26991753 | Anesth Analg | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26991753 |
| Convergence and Stability of a Class of Iteratively Re-weighted Least Squares Algorithms for Sparse Signal Recovery in the Presence of Noise. | Babadi B, Ba D, Purdon PL, Brown EN | IEEE transactions on signal processing : a publication of the IEEE Signal Processing Society | 26549965 | IEEE Trans Signal Process | 2013 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/26549965 |
| Biophysical Modeling of Alpha Rhythms During Halothane-Induced Unconsciousness. | Vijayan S, Ching S, Purdon PL, Brown EN, Kopell NJ | International IEEE/EMBS Conference on Neural Engineering : [proceedings]. International IEEE EMBS Conference on Neural Engineering | 25284633 | Int IEEE EMBS Conf Neural Eng | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/25284633 |
| Robust control of burst suppression for medical coma. | Westover MB, Kim SE, Ching S, Purdon PL, Brown EN | Journal of neural engineering | 26020243 | J Neural Eng | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26020243 |
| A PK-PD model of ketamine-induced high-frequency oscillations. | Flores FJ, Ching S, Hartnack K, Fath AB, Purdon PL, Wilson MA, Brown EN | Journal of neural engineering | 26268223 | J Neural Eng | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26268223 |
| Electroencephalographic markers of brain development during sevoflurane anaesthesia in children up to 3 years old. | Cornelissen L, Kim SE, Lee JM, Brown EN, Purdon PL, Berde CB | British journal of anaesthesia | 29793594 | Br J Anaesth | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29793594 |
| Context matters: the illusive simplicity of macaque V1 receptive fields. | Haslinger R, Pipa G, Lima B, Singer W, Brown EN, Neuenschwander S | PloS one | 22802940 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22802940 |
| Single-neuron dynamics in human focal epilepsy. | Truccolo W, Donoghue JA, Hochberg LR, Eskandar EN, Madsen JR, Anderson WS, Brown EN, Halgren E, Cash SS | Nature neuroscience | 21441925 | Nat Neurosci | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21441925 |
| General anesthesia, sleep, and coma. | Brown EN, Lydic R, Schiff ND | The New England journal of medicine | 21190458 | N Engl J Med | 2010 Dec 30 | https://www.ncbi.nlm.nih.gov/pubmed/21190458 |
| Point Process Heart Rate Variability Assessment during Sleep Deprivation. | Citi L, Klerman E, Brown E, Barbieri R | Computing in cardiology | 22517071 | Comput Cardiol (2010) | 2010 Dec 31 | https://www.ncbi.nlm.nih.gov/pubmed/22517071 |
| Encoding through patterns: regression tree-based neuronal population models. | Haslinger R, Pipa G, Lewis LD, Nikolić D, Williams Z, Brown E | Neural computation | 23607564 | Neural Comput | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23607564 |
| A real-time brain-machine interface combining motor target and trajectory intent using an optimal feedback control design. | Shanechi MM, Williams ZM, Wornell GW, Hu RC, Powers M, Brown EN | PloS one | 23593130 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23593130 |
| Using point process models to compare neural spiking activity in the subthalamic nucleus of Parkinson's patients and a healthy primate. | Sarma SV, Eden UT, Cheng ML, Williams ZM, Hu R, Eskandar E, Brown EN | IEEE transactions on bio-medical engineering | 20172804 | IEEE Trans Biomed Eng | 2010 Jun | https://www.ncbi.nlm.nih.gov/pubmed/20172804 |
| A regularized point process generalized linear model for assessing the functional connectivity in the cat motor cortex. | Chen Z, Putrino DF, Ba DE, Ghosh S, Barbieri R, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19965032 | Annu Int Conf IEEE Eng Med Biol Soc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19965032 |
| Trial outcome and associative learning signals in the monkey hippocampus. | Wirth S, Avsar E, Chiu CC, Sharma V, Smith AC, Brown E, Suzuki WA | Neuron | 19324001 | Neuron | 2009 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/19324001 |
| Analysis of between-trial and within-trial neural spiking dynamics. | Czanner G, Eden UT, Wirth S, Yanike M, Suzuki WA, Brown EN | Journal of neurophysiology | 18216233 | J Neurophysiol | 2008 May | https://www.ncbi.nlm.nih.gov/pubmed/18216233 |
| Thalamocortical model for a propofol-induced alpha-rhythm associated with loss of consciousness. | Ching S, Cimenser A, Purdon PL, Brown EN, Kopell NJ | Proceedings of the National Academy of Sciences of the United States of America | 21149695 | Proc Natl Acad Sci U S A | 2010 Dec 28 | https://www.ncbi.nlm.nih.gov/pubmed/21149695 |
| Motor cortical networks for skilled movements have dynamic properties that are related to accurate reaching. | Putrino DF, Chen Z, Ghosh S, Brown EN | Neural plasticity | 22007332 | Neural Plast | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22007332 |
| Modeling two-photon calcium fluorescence of episodic V1 recordings using multifrequency analysis. | Zheng HW, Malik WQ, Runyan CA, Sur M, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 22254975 | Annu Int Conf IEEE Eng Med Biol Soc | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22254975 |
| Broad range of neural dynamics from a time-varying FitzHugh-Nagumo model and its spiking threshold estimation. | Faghih RT, Savla K, Dahleh MA, Brown EN | IEEE transactions on bio-medical engineering | 22186931 | IEEE Trans Biomed Eng | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22186931 |
| Methylphenidate actively induces emergence from general anesthesia. | Solt K, Cotten JF, Cimenser A, Wong KF, Chemali JJ, Brown EN | Anesthesiology | 21934407 | Anesthesiology | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21934407 |
| STATE-SPACE SOLUTIONS TO THE DYNAMIC MAGNETOENCEPHALOGRAPHY INVERSE PROBLEM USING HIGH PERFORMANCE COMPUTING. | Long CJ, Purdon PL, Temereanca S, Desai NU, Hämäläinen MS, Brown EN | The annals of applied statistics | 22081780 | Ann Appl Stat | 2011 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/22081780 |
| Functional biases in visual cortex neurons with identified projections to higher cortical targets. | Jarosiewicz B, Schummers J, Malik WQ, Brown EN, Sur M | Current biology : CB | 22305753 | Curr Biol | 2012 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/22305753 |
| A neurophysiological-metabolic model for burst suppression. | Ching S, Purdon PL, Vijayan S, Kopell NJ, Brown EN | Proceedings of the National Academy of Sciences of the United States of America | 22323592 | Proc Natl Acad Sci U S A | 2012 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/22323592 |
| Point process time-frequency analysis of dynamic respiratory patterns during meditation practice. | Kodituwakku S, Lazar SW, Indic P, Chen Z, Brown EN, Barbieri R | Medical & biological engineering & computing | 22350435 | Med Biol Eng Comput | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22350435 |
| Eye movements modulate the spatiotemporal dynamics of word processing. | Temereanca S, Hämäläinen MS, Kuperberg GR, Stufflebeam SM, Halgren E, Brown EN | The Journal of neuroscience : the official journal of the Society for Neuroscience | 22457496 | J Neurosci | 2012 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/22457496 |
| Efficient decoding with steady-state Kalman filter in neural interface systems. | Malik WQ, Truccolo W, Brown EN, Hochberg LR | IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society | 21078582 | IEEE Trans Neural Syst Rehabil Eng | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21078582 |
| Point process time-frequency analysis of respiratory sinus arrhythmia under altered respiration dynamics. | Kodituwakku S, Lazar SW, Indic P, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 21096135 | Annu Int Conf IEEE Eng Med Biol Soc | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/21096135 |
| Application of dynamic point process models to cardiovascular control. | Barbieri R, Brown EN | Bio Systems | 18515000 | Biosystems | 2008 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/18515000 |
| Instantaneous frequency and amplitude modulation of EEG in the hippocampus reveals state dependent temporal structure. | Nguyen DP, Barbieri R, Wilson MA, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19163009 | Annu Int Conf IEEE Eng Med Biol Soc | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19163009 |
| Characterizing nonlinear heartbeat dynamics within a point process framework. | Chen Z, Brown EN, Barbieri R | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19163282 | Annu Int Conf IEEE Eng Med Biol Soc | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19163282 |
| Assessment of hippocampal and autonomic neural activity by point process models. | Barbieri R, Chen Z, Brown EN | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 19163509 | Annu Int Conf IEEE Eng Med Biol Soc | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19163509 |
| Electrical stimulation of the ventral tegmental area induces reanimation from general anesthesia. | Solt K, Van Dort CJ, Chemali JJ, Taylor NE, Kenny JD, Brown EN | Anesthesiology | 24398816 | Anesthesiology | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24398816 |
| Corticoamygdala Transfer of Socially Derived Information Gates Observational Learning. | Allsop SA, Wichmann R, Mills F, Burgos-Robles A, Chang CJ, Felix-Ortiz AC, Vienne A, Beyeler A, Izadmehr EM, Glober G, Cum MI, Stergiadou J, Anandalingam KK, Farris K, Namburi P, Leppla CA, Weddington JC, Nieh EH, Smith AC, Ba D, Brown EN, Tye KM | Cell | 29731170 | Cell | 2018 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/29731170 |
| Effects of sevoflurane and propofol on frontal electroencephalogram power and coherence. | Akeju O, Westover MB, Pavone KJ, Sampson AL, Hartnack KE, Brown EN, Purdon PL | Anesthesiology | 25233374 | Anesthesiology | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25233374 |
| Electroencephalogram signatures of ketamine anesthesia-induced unconsciousness. | Akeju O, Song AH, Hamilos AE, Pavone KJ, Flores FJ, Brown EN, Purdon PL | Clinical neurophysiology : official journal of the International Federation of Clinical Neurophysiology | 27178861 | Clin Neurophysiol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27178861 |
| Age-dependency of sevoflurane-induced electroencephalogram dynamics in children. | Akeju O, Pavone KJ, Thum JA, Firth PG, Westover MB, Puglia M, Shank ES, Brown EN, Purdon PL | British journal of anaesthesia | 26174303 | Br J Anaesth | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26174303 |
| The human burst suppression electroencephalogram of deep hypothermia. | Westover MB, Ching S, Kumaraswamy VM, Akeju SO, Pierce E, Cash SS, Kilbride R, Brown EN, Purdon PL | Clinical neurophysiology : official journal of the International Federation of Clinical Neurophysiology | 25649968 | Clin Neurophysiol | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25649968 |
| Optogenetic activation of cholinergic neurons in the PPT or LDT induces REM sleep. | Van Dort CJ, Zachs DP, Kenny JD, Zheng S, Goldblum RR, Gelwan NA, Ramos DM, Nolan MA, Wang K, Weng FJ, Lin Y, Wilson MA, Brown EN | Proceedings of the National Academy of Sciences of the United States of America | 25548191 | Proc Natl Acad Sci U S A | 2015 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/25548191 |
| Role of reactive oxygen species in antibiotic action and resistance. | Dwyer DJ, Kohanski MA, Collins JJ | Current opinion in microbiology | 19647477 | Curr Opin Microbiol | 2009 Oct | https://www.ncbi.nlm.nih.gov/pubmed/19647477 |
| Functional characterization of bacterial sRNAs using a network biology approach. | Modi SR, Camacho DM, Kohanski MA, Walker GC, Collins JJ | Proceedings of the National Academy of Sciences of the United States of America | 21876160 | Proc Natl Acad Sci U S A | 2011 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/21876160 |
| Microbial environments confound antibiotic efficacy. | Lee HH, Collins JJ | Nature chemical biology | 22173343 | Nat Chem Biol | 2011 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/22173343 |
| Genetic switchboard for synthetic biology applications. | Callura JM, Cantor CR, Collins JJ | Proceedings of the National Academy of Sciences of the United States of America | 22454498 | Proc Natl Acad Sci U S A | 2012 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/22454498 |
| Bacterial charity work leads to population-wide resistance. | Lee HH, Molla MN, Cantor CR, Collins JJ | Nature | 20811456 | Nature | 2010 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/20811456 |
| Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome. | Modi SR, Lee HH, Spina CS, Collins JJ | Nature | 23748443 | Nature | 2013 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/23748443 |
| Microbial persistence and the road to drug resistance. | Cohen NR, Lobritz MA, Collins JJ | Cell host & microbe | 23768488 | Cell Host Microbe | 2013 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/23768488 |
| A role for the bacterial GATC methylome in antibiotic stress survival. | Cohen NR, Ross CA, Jain S, Shapiro RS, Gutierrez A, Belenky P, Li H, Collins JJ | Nature genetics | 26998690 | Nat Genet | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26998690 |
| Bactericidal Antibiotics Induce Toxic Metabolic Perturbations that Lead to Cellular Damage. | Belenky P, Ye JD, Porter CB, Cohen NR, Lobritz MA, Ferrante T, Jain S, Korry BJ, Schwarz EG, Walker GC, Collins JJ | Cell reports | 26565910 | Cell Rep | 2015 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/26565910 |
| Hydroxyurea induces hydroxyl radical-mediated cell death in Escherichia coli. | Davies BW, Kohanski MA, Simmons LA, Winkler JA, Collins JJ, Walker GC | Molecular cell | 20005847 | Mol Cell | 2009 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/20005847 |
| Diversity-based, model-guided construction of synthetic gene networks with predicted functions. | Ellis T, Wang X, Collins JJ | Nature biotechnology | 19377462 | Nat Biotechnol | 2009 May | https://www.ncbi.nlm.nih.gov/pubmed/19377462 |
| Antibiotic efficacy is linked to bacterial cellular respiration. | Lobritz MA, Belenky P, Porter CB, Gutierrez A, Yang JH, Schwarz EG, Dwyer DJ, Khalil AS, Collins JJ | Proceedings of the National Academy of Sciences of the United States of America | 26100898 | Proc Natl Acad Sci U S A | 2015 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/26100898 |
| Tunable protein degradation in bacteria. | Cameron DE, Collins JJ | Nature biotechnology | 25402616 | Nat Biotechnol | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25402616 |
| Tunable signal processing in synthetic MAP kinase cascades. | O'Shaughnessy EC, Palani S, Collins JJ, Sarkar CA | Cell | 21215374 | Cell | 2011 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/21215374 |
| Metabolite-enabled eradication of bacterial persisters by aminoglycosides. | Allison KR, Brynildsen MP, Collins JJ | Nature | 21562562 | Nature | 2011 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/21562562 |
| Bacteria as control engineers. | Allison KR, Collins JJ | Molecular cell | 21211717 | Mol Cell | 2011 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/21211717 |
| Sublethal antibiotic treatment leads to multidrug resistance via radical-induced mutagenesis. | Kohanski MA, DePristo MA, Collins JJ | Molecular cell | 20159551 | Mol Cell | 2010 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/20159551 |
| Tracking, tuning, and terminating microbial physiology using synthetic riboregulators. | Callura JM, Dwyer DJ, Isaacs FJ, Cantor CR, Collins JJ | Proceedings of the National Academy of Sciences of the United States of America | 20713708 | Proc Natl Acad Sci U S A | 2010 Sep 7 | https://www.ncbi.nlm.nih.gov/pubmed/20713708 |
| Synthetic biology: applications come of age. | Khalil AS, Collins JJ | Nature reviews. Genetics | 20395970 | Nat Rev Genet | 2010 May | https://www.ncbi.nlm.nih.gov/pubmed/20395970 |
| Central role for RNase YbeY in Hfq-dependent and Hfq-independent small-RNA regulation in bacteria. | Pandey SP, Winkler JA, Li H, Camacho DM, Collins JJ, Walker GC | BMC genomics | 24511998 | BMC Genomics | 2014 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/24511998 |
| Wisdom of crowds for robust gene network inference. | Marbach D, Costello JC, Küffner R, Vega NM, Prill RJ, Camacho DM, Allison KR, DREAM5 Consortium, Kellis M, Collins JJ, Stolovitzky G | Nature methods | 22796662 | Nat Methods | 2012 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/22796662 |
| Iterative plug-and-play methodology for constructing and modifying synthetic gene networks. | Litcofsky KD, Afeyan RB, Krom RJ, Khalil AS, Collins JJ | Nature methods | 23042452 | Nat Methods | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23042452 |
| Fungicidal drugs induce a common oxidative-damage cellular death pathway. | Belenky P, Camacho D, Collins JJ | Cell reports | 23416050 | Cell Rep | 2013 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/23416050 |
| Oxidation of the guanine nucleotide pool underlies cell death by bactericidal antibiotics. | Foti JJ, Devadoss B, Winkler JA, Collins JJ, Walker GC | Science (New York, N.Y.) | 22517853 | Science | 2012 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/22517853 |
| Next-generation synthetic gene networks. | Lu TK, Khalil AS, Collins JJ | Nature biotechnology | 20010597 | Nat Biotechnol | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20010597 |
| Mistranslation of membrane proteins and two-component system activation trigger antibiotic-mediated cell death. | Kohanski MA, Dwyer DJ, Wierzbowski J, Cottarel G, Collins JJ | Cell | 19013277 | Cell | 2008 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/19013277 |
| How antibiotics kill bacteria: from targets to networks. | Kohanski MA, Dwyer DJ, Collins JJ | Nature reviews. Microbiology | 20440275 | Nat Rev Microbiol | 2010 Jun | https://www.ncbi.nlm.nih.gov/pubmed/20440275 |
| Heterogeneous bacterial persisters and engineering approaches to eliminate them. | Allison KR, Brynildsen MP, Collins JJ | Current opinion in microbiology | 21937262 | Curr Opin Microbiol | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21937262 |
| Epilepsy as a spectrum disorder: Implications from novel clinical and basic neuroscience. | Jensen FE | Epilepsia | 21214533 | Epilepsia | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21214533 |
| Early alterations of AMPA receptors mediate synaptic potentiation induced by neonatal seizures. | Rakhade SN, Zhou C, Aujla PK, Fishman R, Sucher NJ, Jensen FE | The Journal of neuroscience : the official journal of the Society for Neuroscience | 18685023 | J Neurosci | 2008 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/18685023 |
| Neonatal seizures: an update on mechanisms and management. | Jensen FE | Clinics in perinatology | 19944840 | Clin Perinatol | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19944840 |
| The developing oligodendrocyte: key cellular target in brain injury in the premature infant. | Volpe JJ, Kinney HC, Jensen FE, Rosenberg PA | International journal of developmental neuroscience : the official journal of the International Society for Developmental Neuroscience | 21382469 | Int J Dev Neurosci | 2011 Jun | https://www.ncbi.nlm.nih.gov/pubmed/21382469 |
| Cannabidiol attenuates seizure susceptibility and behavioural deficits in adult CDKL5(R59X) knock-in mice. | Li X, Yennawar M, Wiest A, O'Brien WT, Babrowicz B, White RS, Talos DM, Jensen FE | The European journal of neuroscience | 38654472 | Eur J Neurosci | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38654472 |
| Visual predictions in the orbitofrontal cortex rely on associative content. | Chaumon M, Kveraga K, Barrett LF, Bar M | Cerebral cortex (New York, N.Y. : 1991) | 23771980 | Cereb Cortex | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23771980 |
| Neural evidence that human emotions share core affective properties. | Wilson-Mendenhall CD, Barrett LF, Barsalou LW | Psychological science | 23603916 | Psychol Sci | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23603916 |
| Conceptualizing and experiencing compassion. | Condon P, Feldman Barrett L | Emotion (Washington, D.C.) | 23914766 | Emotion | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23914766 |
| Functional grouping and cortical-subcortical interactions in emotion: a meta-analysis of neuroimaging studies. | Kober H, Barrett LF, Joseph J, Bliss-Moreau E, Lindquist K, Wager TD | NeuroImage | 18579414 | Neuroimage | 2008 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/18579414 |
| Novelty as a dimension in the affective brain. | Weierich MR, Wright CI, Negreira A, Dickerson BC, Barrett LF | NeuroImage | 19796697 | Neuroimage | 2010 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/19796697 |
| Affective state influences perception by affecting decision parameters underlying bias and sensitivity. | Lynn SK, Zhang X, Barrett LF | Emotion (Washington, D.C.) | 22251054 | Emotion | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22251054 |
| A functional architecture of the human brain: emerging insights from the science of emotion. | Lindquist KA, Barrett LF | Trends in cognitive sciences | 23036719 | Trends Cogn Sci | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23036719 |
| Dissociable large-scale networks anchored in the right anterior insula subserve affective experience and attention. | Touroutoglou A, Hollenbeck M, Dickerson BC, Feldman Barrett L | NeuroImage | 22361166 | Neuroimage | 2012 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/22361166 |
| Large-scale brain networks in affective and social neuroscience: towards an integrative functional architecture of the brain. | Barrett LF, Satpute AB | Current opinion in neurobiology | 23352202 | Curr Opin Neurobiol | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23352202 |
| The hundred-year emotion war: are emotions natural kinds or psychological constructions? Comment on Lench, Flores, and Bench (2011). | Lindquist KA, Siegel EH, Quigley KS, Barrett LF | Psychological bulletin | 23294094 | Psychol Bull | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23294094 |
| The role of affective experience in work motivation: Test of a conceptual model. | Seo MG, Bartunek JM, Barrett LF | Journal of organizational behavior | 21785527 | J Organ Behav | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21785527 |
| Bridging Token Identity Theory and Supervenience Theory Through Psychological Construction. | Barrett LF | Psychological inquiry | 21785534 | Psychol Inq | 2011 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/21785534 |
| Context is routinely encoded during emotion perception. | Barrett LF, Kensinger EA | Psychological science | 20424107 | Psychol Sci | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20424107 |
| Experience Sampling Methods: A Modern Idiographic Approach to Personality Research. | Conner TS, Tennen H, Fleeson W, Barrett LF | Social and personality psychology compass | 19898679 | Soc Personal Psychol Compass | 2009 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/19898679 |
| The Future of Psychology: Connecting Mind to Brain. | Barrett LF | Perspectives on psychological science : a journal of the Association for Psychological Science | 19844601 | Perspect Psychol Sci | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19844601 |
| A reliable protocol for the manual segmentation of the human amygdala and its subregions using ultra-high resolution MRI. | Entis JJ, Doerga P, Barrett LF, Dickerson BC | NeuroImage | 22245260 | Neuroimage | 2012 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/22245260 |
| Emotion words, emotion concepts, and emotional development in children: A constructionist hypothesis. | Hoemann K, Xu F, Barrett LF | Developmental psychology | 31464489 | Dev Psychol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31464489 |
| Involvement of Sensory Regions in Affective Experience: A Meta-Analysis. | Satpute AB, Kang J, Bickart KC, Yardley H, Wager TD, Barrett LF | Frontiers in psychology | 26696928 | Front Psychol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26696928 |
| Stronger Functional Connectivity in the Default Mode and Salience Networks Is Associated With Youthful Memory in Superaging. | Zhang J, Andreano JM, Dickerson BC, Touroutoglou A, Barrett LF | Cerebral cortex (New York, N.Y. : 1991) | 31058917 | Cereb Cortex | 2020 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/31058917 |
| Novel response patterns during repeated presentation of affective and neutral stimuli. | Satpute AB, Hanington L, Barrett LF | Social cognitive and affective neuroscience | 27928070 | Soc Cogn Affect Neurosci | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27928070 |
| Learning situated emotions. | Lebois LAM, Wilson-Mendenhall CD, Simmons WK, Barrett LF, Barsalou LW | Neuropsychologia | 29330097 | Neuropsychologia | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29330097 |
| Words are a context for mental inference. | Betz N, Hoemann K, Barrett LF | Emotion (Washington, D.C.) | 30628815 | Emotion | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30628815 |
| How does this make you feel? A comparison of four affect induction procedures. | Zhang X, Yu HW, Barrett LF | Frontiers in psychology | 25071659 | Front Psychol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25071659 |
| Cultural relativity in perceiving emotion from vocalizations. | Gendron M, Roberson D, van der Vyver JM, Barrett LF | Psychological science | 24501109 | Psychol Sci | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24501109 |
| Threat perception after the Boston Marathon bombings: The effects of personal relevance and conceptual framing. | Wormwood JB, Lynn SK, Feldman Barrett L, Quigley KS | Cognition & emotion | 25707419 | Cogn Emot | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/25707419 |
| Methodological recommendations for a heartbeat detection-based measure of interoceptive sensitivity. | Kleckner IR, Wormwood JB, Simmons WK, Barrett LF, Quigley KS | Psychophysiology | 26265009 | Psychophysiology | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26265009 |
| Working memory capacity is associated with optimal adaptation of response bias to perceptual sensitivity in emotion perception. | Lynn SK, Ibagon C, Bui E, Palitz SA, Simon NM, Barrett LF | Emotion (Washington, D.C.) | 26461251 | Emotion | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26461251 |
| Perceptions of emotion from facial expressions are not culturally universal: evidence from a remote culture. | Gendron M, Roberson D, van der Vyver JM, Barrett LF | Emotion (Washington, D.C.) | 24708506 | Emotion | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24708506 |
| The neural representation of typical and atypical experiences of negative images: comparing fear, disgust and morbid fascination. | Oosterwijk S, Lindquist KA, Adebayo M, Barrett LF | Social cognitive and affective neuroscience | 26180088 | Soc Cogn Affect Neurosci | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26180088 |
| Unseen Affective Faces Influence Person Perception Judgments in Schizophrenia. | Kring AM, Siegel EH, Barrett LF | Clinical psychological science : a journal of the Association for Psychological Science | 25664225 | Clin Psychol Sci | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25664225 |
| States of mind: emotions, body feelings, and thoughts share distributed neural networks. | Oosterwijk S, Lindquist KA, Anderson E, Dautoff R, Moriguchi Y, Barrett LF | NeuroImage | 22677148 | Neuroimage | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22677148 |
| Emotions are real. | Barrett LF | Emotion (Washington, D.C.) | 22642358 | Emotion | 2012 Jun | https://www.ncbi.nlm.nih.gov/pubmed/22642358 |
| Neural correlates of novelty and face-age effects in young and elderly adults. | Wright CI, Negreira A, Gold AL, Britton JC, Williams D, Barrett LF | NeuroImage | 18586522 | Neuroimage | 2008 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/18586522 |
| Individual differences in learning the affective value of others under minimal conditions. | Bliss-Moreau E, Barrett LF, Wright CI | Emotion (Washington, D.C.) | 18729580 | Emotion | 2008 Aug | https://www.ncbi.nlm.nih.gov/pubmed/18729580 |
| Amygdala and fusiform gyrus temporal dynamics: responses to negative facial expressions. | Britton JC, Shin LM, Barrett LF, Rauch SL, Wright CI | BMC neuroscience | 18474111 | BMC Neurosci | 2008 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/18474111 |
| The visual impact of gossip. | Anderson E, Siegel EH, Bliss-Moreau E, Barrett LF | Science (New York, N.Y.) | 21596956 | Science | 2011 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/21596956 |
| Valence focus and self-esteem lability: reacting to hedonic cues in the social environment. | Pietromonaco PR, Barrett LF | Emotion (Washington, D.C.) | 19485618 | Emotion | 2009 Jun | https://www.ncbi.nlm.nih.gov/pubmed/19485618 |
| See it with feeling: affective predictions during object perception. | Barrett LF, Bar M | Philosophical transactions of the Royal Society of London. Series B, Biological sciences | 19528014 | Philos Trans R Soc Lond B Biol Sci | 2009 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/19528014 |
| Affective learning enhances activity and functional connectivity in early visual cortex. | Damaraju E, Huang YM, Barrett LF, Pessoa L | Neuropsychologia | 19410587 | Neuropsychologia | 2009 Oct | https://www.ncbi.nlm.nih.gov/pubmed/19410587 |
| Considering PTSD from the perspective of brain processes: a psychological construction approach. | Suvak MK, Barrett LF | Journal of traumatic stress | 21298725 | J Trauma Stress | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21298725 |
| Reading chimpanzee faces: evidence for the role of verbal labels in categorical perception of emotion. | Fugate JM, Gouzoules H, Barrett LF | Emotion (Washington, D.C.) | 20677871 | Emotion | 2010 Aug | https://www.ncbi.nlm.nih.gov/pubmed/20677871 |
| What You Feel Influences What You See: The Role of Affective Feelings in Resolving Binocular Rivalry. | Anderson E, Siegel EH, Barrett LF | Journal of experimental social psychology | 21789027 | J Exp Soc Psychol | 2011 Jul | https://www.ncbi.nlm.nih.gov/pubmed/21789027 |
| Out of sight but not out of mind: unseen affective faces influence evaluations and social impressions. | Anderson E, Siegel E, White D, Barrett LF | Emotion (Washington, D.C.) | 22506501 | Emotion | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22506501 |
| Emotion words shape emotion percepts. | Gendron M, Lindquist KA, Barsalou L, Barrett LF | Emotion (Washington, D.C.) | 22309717 | Emotion | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22309717 |
| Intrinsic amygdala-cortical functional connectivity predicts social network size in humans. | Bickart KC, Hollenbeck MC, Barrett LF, Dickerson BC | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23077058 | J Neurosci | 2012 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/23077058 |
| Emotion Words' Effect on Visual Awareness and Attention of Emotional Faces. | Fugate JMB, MacDonald C, O'Hare AJ | Frontiers in psychology | 32010012 | Front Psychol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/32010012 |
| "Utilizing" signal detection theory. | Lynn SK, Barrett LF | Psychological science | 25097061 | Psychol Sci | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25097061 |
| Gender differences in oxytocin-associated disruption of decision bias during emotion perception. | Lynn SK, Hoge EA, Fischer LE, Barrett LF, Simon NM | Psychiatry research | 24814142 | Psychiatry Res | 2014 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/24814142 |
| AFFECT AND THE FRAMING EFFECT WITHIN INDIVIDUALS OVER TIME: RISK TAKING IN A DYNAMIC INVESTMENT SIMULATION. | Seo MG, Goldfarb B, Barrett LF | Academy of Management journal. Academy of Management | 26412860 | Acad Manage J | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26412860 |
| Emotional Granularity is Associated with Daily Experiential Diversity. | Hoemann K, Lee Y, Kuppens P, Gendron M, Boyd RL | Affective science | 37304562 | Affect Sci | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37304562 |
| The relation between valence and arousal in subjective experience. | Kuppens P, Tuerlinckx F, Russell JA, Barrett LF | Psychological bulletin | 23231533 | Psychol Bull | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23231533 |
| Reconstructing the Past: A Century of Ideas About Emotion in Psychology. | Gendron M, Barrett LF | Emotion review : journal of the International Society for Research on Emotion | 20221412 | Emot Rev | 2009 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/20221412 |
| Emotional granularity and borderline personality disorder. | Suvak MK, Litz BT, Sloan DM, Zanarini MC, Barrett LF, Hofmann SG | Journal of abnormal psychology | 21171723 | J Abnorm Psychol | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21171723 |
| Affective value and associative processing share a cortical substrate. | Shenhav A, Barrett LF, Bar M | Cognitive, affective & behavioral neuroscience | 23090717 | Cogn Affect Behav Neurosci | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23090717 |
| Authors’ response: what are emotions and how are they created in the brain? | Lindquist KA, Wager TD, Bliss-Moreau E, Kober H, Barret LF | The Behavioral and brain sciences | 22783560 | Behav Brain Sci | 2012 Jun | https://www.ncbi.nlm.nih.gov/pubmed/22783560 |
| Differential hemodynamic response in affective circuitry with aging: an FMRI study of novelty, valence, and arousal. | Moriguchi Y, Negreira A, Weierich M, Dautoff R, Dickerson BC, Wright CI, Barrett LF | Journal of cognitive neuroscience | 20521849 | J Cogn Neurosci | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/20521849 |
| Emotion words: Adding face value. | Fugate JMB, Gendron M, Nakashima SF, Barrett LF | Emotion (Washington, D.C.) | 28604040 | Emotion | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28604040 |
| Establishing the situated features associated with perceived stress. | Lebois LA, Hertzog C, Slavich GM, Barrett LF, Barsalou LW | Acta psychologica | 27288834 | Acta Psychol (Amst) | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27288834 |
| Does language do more than communicate emotion? | Lindquist KA, Satpute AB, Gendron M | Current directions in psychological science | 25983400 | Curr Dir Psychol Sci | 2015 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/25983400 |
| A shift in perspective: Decentering through mindful attention to imagined stressful events. | Lebois LA, Papies EK, Gopinath K, Cabanban R, Quigley KS, Krishnamurthy V, Barrett LF, Barsalou LW | Neuropsychologia | 26111487 | Neuropsychologia | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26111487 |
| Decision making from economic and signal detection perspectives: development of an integrated framework. | Lynn SK, Wormwood JB, Barrett LF, Quigley KS | Frontiers in psychology | 26217275 | Front Psychol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26217275 |
| Emotion perception, but not affect perception, is impaired with semantic memory loss. | Lindquist KA, Gendron M, Barrett LF, Dickerson BC | Emotion (Washington, D.C.) | 24512242 | Emotion | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24512242 |
| Understanding the Mind by Measuring the Brain: Lessons From Measuring Behavior (Commentary on Vul et al., 2009). | Barrett LF | Perspectives on psychological science : a journal of the Association for Psychological Science | 19672318 | Perspect Psychol Sci | 2009 May | https://www.ncbi.nlm.nih.gov/pubmed/19672318 |
| Variety in emotional life: within-category typicality of emotional experiences is associated with neural activity in large-scale brain networks. | Wilson-Mendenhall CD, Barrett LF, Barsalou LW | Social cognitive and affective neuroscience | 24563528 | Soc Cogn Affect Neurosci | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24563528 |
| Identification of discrete functional subregions of the human periaqueductal gray. | Satpute AB, Wager TD, Cohen-Adad J, Bianciardi M, Choi JK, Buhle JT, Wald LL, Barrett LF | Proceedings of the National Academy of Sciences of the United States of America | 24082116 | Proc Natl Acad Sci U S A | 2013 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/24082116 |
| Gender moderates the effect of oxytocin on social judgments. | Hoge EA, Anderson E, Lawson EA, Bui E, Fischer LE, Khadge SD, Barrett LF, Simon NM | Human psychopharmacology | 24911580 | Hum Psychopharmacol | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24911580 |
| The Brain Basis of Positive and Negative Affect: Evidence from a Meta-Analysis of the Human Neuroimaging Literature. | Lindquist KA, Satpute AB, Wager TD, Weber J, Barrett LF | Cerebral cortex (New York, N.Y. : 1991) | 25631056 | Cereb Cortex | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/25631056 |
| Atrophy in distinct corticolimbic networks in frontotemporal dementia relates to social impairments measured using the Social Impairment Rating Scale. | Bickart KC, Brickhouse M, Negreira A, Sapolsky D, Barrett LF, Dickerson BC | Journal of neurology, neurosurgery, and psychiatry | 24133285 | J Neurol Neurosurg Psychiatry | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24133285 |
| Heightened sensitivity to emotional expressions in generalised anxiety disorder, compared to social anxiety disorder, and controls. | Bui E, Anderson E, Goetter EM, Campbell AA, Fischer LE, Barrett LF, Simon NM | Cognition & emotion | 26395075 | Cogn Emot | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26395075 |
| Conscious awareness is necessary for affective faces to influence social judgments. | Kleckner IR, Anderson EC, Betz NJ, Wormwood JB, Eskew RT Jr, Barrett LF | Journal of experimental social psychology | 31097841 | J Exp Soc Psychol | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31097841 |
| The power of predictions: An emerging paradigm for psychological research. | Hutchinson JB, Barrett LF | Current directions in psychological science | 31749520 | Curr Dir Psychol Sci | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31749520 |
| Introducing a Face Sort Paradigm to Evaluate Age Differences in Emotion Perception. | Hoemann K, Vicaria IM, Gendron M, Stanley JT | The journals of gerontology. Series B, Psychological sciences and social sciences | 32211791 | J Gerontol B Psychol Sci Soc Sci | 2021 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/32211791 |
| Amygdala task-evoked activity and task-free connectivity independently contribute to feelings of arousal. | Touroutoglou A, Bickart KC, Barrett LF, Dickerson BC | Human brain mapping | 24862171 | Hum Brain Mapp | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24862171 |
| Sex differences in the neural correlates of affective experience. | Moriguchi Y, Touroutoglou A, Dickerson BC, Barrett LF | Social cognitive and affective neuroscience | 23596188 | Soc Cogn Affect Neurosci | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/23596188 |
| Intrinsic connectivity in the human brain does not reveal networks for 'basic' emotions. | Touroutoglou A, Lindquist KA, Dickerson BC, Barrett LF | Social cognitive and affective neuroscience | 25680990 | Soc Cogn Affect Neurosci | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25680990 |
| Is there consistency and specificity of autonomic changes during emotional episodes? Guidance from the Conceptual Act Theory and psychophysiology. | Quigley KS, Barrett LF | Biological psychology | 24388802 | Biol Psychol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24388802 |
| Internal valence modulates the speed of object recognition. | Panichello MF, Kveraga K, Chaumon M, Bar M, Barrett LF | Scientific reports | 28336933 | Sci Rep | 2017 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/28336933 |
| Functional connectivity dynamics during film viewing reveal common networks for different emotional experiences. | Raz G, Touroutoglou A, Wilson-Mendenhall C, Gilam G, Lin T, Gonen T, Jacob Y, Atzil S, Admon R, Bleich-Cohen M, Maron-Katz A, Hendler T, Barrett LF | Cognitive, affective & behavioral neuroscience | 27142636 | Cogn Affect Behav Neurosci | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27142636 |
| Emotion fingerprints or emotion populations? A meta-analytic investigation of autonomic features of emotion categories. | Siegel EH, Sands MK, Van den Noortgate W, Condon P, Chang Y, Dy J, Quigley KS, Barrett LF | Psychological bulletin | 29389177 | Psychol Bull | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29389177 |
| Risk Factors, Neuroanatomical Correlates, and Outcome of Neuropsychiatric Symptoms in Alzheimer's Disease. | Poulin SP, Bergeron D, Dickerson BC, Alzheimer’s Disease Neuroimaging Initiative | Journal of Alzheimer's disease : JAD | 28869463 | J Alzheimers Dis | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28869463 |
| Primary Interoceptive Cortex Activity during Simulated Experiences of the Body. | Wilson-Mendenhall CD, Henriques A, Barsalou LW, Barrett LF | Journal of cognitive neuroscience | 30277431 | J Cogn Neurosci | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30277431 |
| Trends in ambulatory self-report: the role of momentary experience in psychosomatic medicine. | Conner TS, Barrett LF | Psychosomatic medicine | 22582330 | Psychosom Med | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22582330 |
| The brain basis of emotion: a meta-analytic review. | Lindquist KA, Wager TD, Kober H, Bliss-Moreau E, Barrett LF | The Behavioral and brain sciences | 22617651 | Behav Brain Sci | 2012 Jun | https://www.ncbi.nlm.nih.gov/pubmed/22617651 |
| Situating emotional experience. | Wilson-Mendenhall CD, Barrett LF, Barsalou LW | Frontiers in human neuroscience | 24324420 | Front Hum Neurosci | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24324420 |
| Amygdala atrophy is prominent in early Alzheimer's disease and relates to symptom severity. | Poulin SP, Dautoff R, Morris JC, Barrett LF, Dickerson BC, Alzheimer's Disease Neuroimaging Initiative | Psychiatry research | 21920712 | Psychiatry Res | 2011 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/21920712 |
| Brain network connectivity-behavioral relationships exhibit trait-like properties: Evidence from hippocampal connectivity and memory. | Touroutoglou A, Andreano JM, Barrett LF, Dickerson BC | Hippocampus | 26105075 | Hippocampus | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26105075 |
| Cultural variation in emotion perception is real: a response to Sauter, Eisner, Ekman, and Scott (2015). | Gendron M, Roberson D, Barrett LF | Psychological science | 25608863 | Psychol Sci | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25608863 |
| A Bayesian model of category-specific emotional brain responses. | Wager TD, Kang J, Johnson TD, Nichols TE, Satpute AB, Barrett LF | PLoS computational biology | 25853490 | PLoS Comput Biol | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25853490 |
| Variety is the spice of life: A psychological construction approach to understanding variability in emotion. | Barrett LF | Cognition & emotion | 20221411 | Cogn Emot | 2009 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/20221411 |
| She's emotional. He's having a bad day: attributional explanations for emotion stereotypes. | Barrett LF, Bliss-Moreau E | Emotion (Washington, D.C.) | 19803587 | Emotion | 2009 Oct | https://www.ncbi.nlm.nih.gov/pubmed/19803587 |
| Affect as a Psychological Primitive. | Barrett LF, Bliss-Moreau E | Advances in experimental social psychology | 20552040 | Adv Exp Soc Psychol | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/20552040 |
| Older and wiser? An affective science perspective on age-related challenges in financial decision making. | Weierich MR, Kensinger EA, Munnell AH, Sass SA, Dickerson BC, Wright CI, Barrett LF | Social cognitive and affective neuroscience | 20587596 | Soc Cogn Affect Neurosci | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20587596 |
| I Like the Sound of Your Voice: Affective Learning about Vocal Signals. | Bliss-Moreau E, Barrett LF, Owren MJ | Journal of experimental social psychology | 20495619 | J Exp Soc Psychol | 2010 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/20495619 |
| Amygdala volume and social network size in humans. | Bickart KC, Wright CI, Dautoff RJ, Dickerson BC, Barrett LF | Nature neuroscience | 21186358 | Nat Neurosci | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21186358 |
| Grounding emotion in situated conceptualization. | Wilson-Mendenhall CD, Barrett LF, Simmons WK, Barsalou LW | Neuropsychologia | 21192959 | Neuropsychologia | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21192959 |
| Microbiota's 'little helpers': bacteriophages and antibiotic-associated responses in the gut microbiome. | Sun CL, Relman DA | Genome biology | 23906048 | Genome Biol | 2013 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/23906048 |
| Single-cell sequencing provides clues about the host interactions of segmented filamentous bacteria (SFB). | Pamp SJ, Harrington ED, Quake SR, Relman DA, Blainey PC | Genome research | 22434425 | Genome Res | 2012 Jun | https://www.ncbi.nlm.nih.gov/pubmed/22434425 |
| Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome. | Pride DT, Salzman J, Haynes M, Rohwer F, Davis-Long C, White RA 3rd, Loomer P, Armitage GC, Relman DA | The ISME journal | 22158393 | ISME J | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22158393 |
| "Inconvenient truths" in the pursuit of scientific knowledge and public health. | Relman DA | The Journal of infectious diseases | 24106297 | J Infect Dis | 2014 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/24106297 |
| Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization. | Sharon I, Morowitz MJ, Thomas BC, Costello EK, Relman DA, Banfield JF | Genome research | 22936250 | Genome Res | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/22936250 |
| Thinking about the microbiome as a causal factor in human health and disease: philosophical and experimental considerations. | Relman DA | Current opinion in microbiology | 32114367 | Curr Opin Microbiol | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32114367 |
| Microbial invasion of the amniotic cavity in pregnancies with small-for-gestational-age fetuses. | DiGiulio DB, Gervasi MT, Romero R, Vaisbuch E, Mazaki-Tovi S, Kusanovic JP, Seok KS, Gómez R, Mittal P, Gotsch F, Chaiworapongsa T, Oyarzún E, Kim CJ, Relman DA | Journal of perinatal medicine | 20482466 | J Perinat Med | 2010 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20482466 |
| Prevalence and diversity of microbes in the amniotic fluid, the fetal inflammatory response, and pregnancy outcome in women with preterm pre-labor rupture of membranes. | DiGiulio DB, Romero R, Kusanovic JP, Gómez R, Kim CJ, Seok KS, Gotsch F, Mazaki-Tovi S, Vaisbuch E, Sanders K, Bik EM, Chaiworapongsa T, Oyarzún E, Relman DA | American journal of reproductive immunology (New York, N.Y. : 1989) | 20331587 | Am J Reprod Immunol | 2010 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/20331587 |
| The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. | Dethlefsen L, Huse S, Sogin ML, Relman DA | PLoS biology | 19018661 | PLoS Biol | 2008 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/19018661 |
| How one bad protein spoils the barrel: structural details of β2-microglobulin amyloidogenicity. | Gierasch LM | Molecular cell | 21255721 | Mol Cell | 2011 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/21255721 |
| How bacteria survive an acid trip. | Hingorani KS, Gierasch LM | Proceedings of the National Academy of Sciences of the United States of America | 23530238 | Proc Natl Acad Sci U S A | 2013 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/23530238 |
| Early folding events protect aggregation-prone regions of a β-rich protein. | Budyak IL, Krishnan B, Marcelino-Cruz AM, Ferrolino MC, Zhuravleva A, Gierasch LM | Structure (London, England : 1993) | 23454187 | Structure | 2013 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/23454187 |
| A method for direct measurement of protein stability in vivo. | Ignatova Z, Gierasch LM | Methods in molecular biology (Clifton, N.J.) | 19157083 | Methods Mol Biol | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19157083 |
| FoldEco: a model for proteostasis in E. coli. | Powers ET, Powers DL, Gierasch LM | Cell reports | 22509487 | Cell Rep | 2012 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/22509487 |
| A career pathway in protein folding: from model peptides to postreductionist protein science. | Gierasch LM | Protein science : a publication of the Protein Society | 21404361 | Protein Sci | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21404361 |
| Delicate balance between functionally required flexibility and aggregation risk in a β-rich protein. | Ferrolino MC, Zhuravleva A, Budyak IL, Krishnan B, Gierasch LM | Biochemistry | 24236614 | Biochemistry | 2013 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/24236614 |
| Comparing protein folding in vitro and in vivo: foldability meets the fitness challenge. | Hingorani KS, Gierasch LM | Current opinion in structural biology | 24434632 | Curr Opin Struct Biol | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24434632 |
| In-cell aggregation of a polyglutamine-containing chimera is a multistep process initiated by the flanking sequence. | Ignatova Z, Thakur AK, Wetzel R, Gierasch LM | The Journal of biological chemistry | 17942400 | J Biol Chem | 2007 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/17942400 |
| Its preferential interactions with biopolymers account for diverse observed effects of trehalose. | Hong J, Gierasch LM, Liu Z | Biophysical journal | 26153711 | Biophys J | 2015 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/26153711 |
| Site-specific fluorescent labeling of poly-histidine sequences using a metal-chelating cysteine. | Krishnan B, Szymanska A, Gierasch LM | Chemical biology & drug design | 17313455 | Chem Biol Drug Des | 2007 Jan | https://www.ncbi.nlm.nih.gov/pubmed/17313455 |
| Effects of osmolytes on protein folding and aggregation in cells. | Ignatova Z, Gierasch LM | Methods in enzymology | 17875429 | Methods Enzymol | 2007 | https://www.ncbi.nlm.nih.gov/pubmed/17875429 |
| Dynamic local unfolding in the serpin α-1 antitrypsin provides a mechanism for loop insertion and polymerization. | Krishnan B, Gierasch LM | Nature structural & molecular biology | 21258324 | Nat Struct Mol Biol | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21258324 |
| Macromolecular crowding remodels the energy landscape of a protein by favoring a more compact unfolded state. | Hong J, Gierasch LM | Journal of the American Chemical Society | 20662522 | J Am Chem Soc | 2010 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/20662522 |
| Protein folding in the cell: challenges and progress. | Gershenson A, Gierasch LM | Current opinion in structural biology | 21112769 | Curr Opin Struct Biol | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21112769 |
| Rett syndrome-causing mutations in human MeCP2 result in diverse structural changes that impact folding and DNA interactions. | Ghosh RP, Horowitz-Scherer RA, Nikitina T, Gierasch LM, Woodcock CL | The Journal of biological chemistry | 18499664 | J Biol Chem | 2008 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/18499664 |
| Using a low denaturant model to explore the conformational features of translocation-active SecA. | Maki JL, Krishnan B, Gierasch LM | Biochemistry | 22304380 | Biochemistry | 2012 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/22304380 |
| Chapter 3: A fluorescent window into protein folding and aggregation in cells. | Ignatova Z, Gierasch LM | Methods in cell biology | 19118672 | Methods Cell Biol | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19118672 |
| Unique physical properties and interactions of the domains of methylated DNA binding protein 2. | Ghosh RP, Nikitina T, Horowitz-Scherer RA, Gierasch LM, Uversky VN, Hite K, Hansen JC, Woodcock CL | Biochemistry | 20405910 | Biochemistry | 2010 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/20405910 |
| The Role of Aromatic-Aromatic Interactions in Strand-Strand Stabilization of β-Sheets. | Budyak IL, Zhuravleva A, Gierasch LM | Journal of molecular biology | 23810905 | J Mol Biol | 2013 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/23810905 |
| Cross-strand split tetra-Cys motifs as structure sensors in a beta-sheet protein. | Krishnan B, Gierasch LM | Chemistry & biology | 18940670 | Chem Biol | 2008 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/18940670 |
| Orthogonal cross-seeding: an approach to explore protein aggregates in living cells. | Hinz J, Gierasch LM, Ignatova Z | Biochemistry | 18330996 | Biochemistry | 2008 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/18330996 |
| From the test tube to the cell: exploring the folding and aggregation of a beta-clam protein. | Ignatova Z, Krishnan B, Bombardier JP, Marcelino AM, Hong J, Gierasch LM | Biopolymers | 17206628 | Biopolymers | 2007 | https://www.ncbi.nlm.nih.gov/pubmed/17206628 |
| Nature's molecular sponges: small heat shock proteins grow into their chaperone roles. | Eyles SJ, Gierasch LM | Proceedings of the National Academy of Sciences of the United States of America | 20133678 | Proc Natl Acad Sci U S A | 2010 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/20133678 |
| Expression and Purification of Active Recombinant Human Alpha-1 Antitrypsin (AAT) from Escherichia coli. | Krishnan B, Hedstrom L, Hebert DN, Gierasch LM, Gershenson A | Methods in molecular biology (Clifton, N.J.) | 28752459 | Methods Mol Biol | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28752459 |
| Exploring weak, transient protein--protein interactions in crowded in vivo environments by in-cell nuclear magnetic resonance spectroscopy. | Wang Q, Zhuravleva A, Gierasch LM | Biochemistry | 21942871 | Biochemistry | 2011 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/21942871 |
| The molecular dating game: an antibody heavy chain hangs loose with a chaperone while waiting for its life partner. | Hebert DN, Gierasch LM | Molecular cell | 19560414 | Mol Cell | 2009 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/19560414 |
| Sending signals dynamically. | Smock RG, Gierasch LM | Science (New York, N.Y.) | 19359576 | Science | 2009 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/19359576 |
| Celebrating the scientific legacy of Elkan R. Blout. | Gierasch LM, Deber CM, Brodsky B | Biopolymers | 18307218 | Biopolymers | 2008 May | https://www.ncbi.nlm.nih.gov/pubmed/18307218 |
| Roles of beta-turns in protein folding: from peptide models to protein engineering. | Marcelino AM, Gierasch LM | Biopolymers | 18275088 | Biopolymers | 2008 May | https://www.ncbi.nlm.nih.gov/pubmed/18275088 |
| Post-reductionist protein science, or putting Humpty Dumpty back together again. | Gierasch LM, Gershenson A | Nature chemical biology | 19841622 | Nat Chem Biol | 2009 Nov | https://www.ncbi.nlm.nih.gov/pubmed/19841622 |
| Hepatic gene expression profiling of 5'-AMP-induced hypometabolism in mice. | Zhao Z, Miki T, Van Oort-Jansen A, Matsumoto T, Loose DS, Lee CC | Physiological genomics | 21224422 | Physiol Genomics | 2011 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/21224422 |
| p53 regulates Period2 expression and the circadian clock. | Miki T, Matsumoto T, Zhao Z, Lee CC | Nature communications | 24051492 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24051492 |
| The Small Molecule Nobiletin Targets the Molecular Oscillator to Enhance Circadian Rhythms and Protect against Metabolic Syndrome. | He B, Nohara K, Park N, Park YS, Guillory B, Zhao Z, Garcia JM, Koike N, Lee CC, Takahashi JS, Yoo SH, Chen Z | Cell metabolism | 27076076 | Cell Metab | 2016 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/27076076 |
| AMP deaminase 3 deficiency enhanced 5'-AMP induction of hypometabolism. | Daniels IS, O Brien WG 3rd, Nath V, Zhao Z, Lee CC | PloS one | 24066180 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24066180 |
| Metabolite Profiling of 5'-AMP-Induced Hypometabolism. | Zhao Z, Van Oort A, Tao Z, O'Brien WG 3rd, Lee CC | Metabolomics : Official journal of the Metabolomic Society | 24511307 | Metabolomics | 2014 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/24511307 |
| A role of erythrocytes in adenosine monophosphate initiation of hypometabolism in mammals. | Daniels IS, Zhang J, O'Brien WG 3rd, Tao Z, Miki T, Zhao Z, Blackburn MR, Lee CC | The Journal of biological chemistry | 20430891 | J Biol Chem | 2010 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/20430891 |
| New insights on the regulation of the adenine nucleotide pool of erythrocytes in mouse models. | O'Brien WG 3rd, Ling HS, Zhao Z, Lee CC | PloS one | 28746349 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28746349 |
| Proteoglycan interactions with Sonic Hedgehog specify mitogenic responses. | Chan JA, Balasubramanian S, Witt RM, Nazemi KJ, Choi Y, Pazyra-Murphy MF, Walsh CO, Thompson M, Segal RA | Nature neuroscience | 19287388 | Nat Neurosci | 2009 Apr | https://www.ncbi.nlm.nih.gov/pubmed/19287388 |
| Shh-proteoglycan interactions regulate maturation of olfactory glomerular circuitry. | Persson L, Witt RM, Galligan M, Greer PL, Eisner A, Pazyra-Murphy MF, Datta SR, Segal RA | Developmental neurobiology | 24913191 | Dev Neurobiol | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24913191 |
| Olfactory behavioral testing in the adult mouse. | Witt RM, Galligan MM, Despinoy JR, Segal R | Journal of visualized experiments : JoVE | 19229182 | J Vis Exp | 2009 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/19229182 |
| Three-dimensional scaffolds for tissue engineering: the importance of uniformity in pore size and structure. | Choi SW, Zhang Y, Xia Y | Langmuir : the ACS journal of surfaces and colloids | 21090781 | Langmuir | 2010 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/21090781 |
| Bright three-photon luminescence from gold/silver alloyed nanostructures for bioimaging with negligible photothermal toxicity. | Tong L, Cobley CM, Chen J, Xia Y, Cheng JX | Angewandte Chemie (International ed. in English) | 20544899 | Angew Chem Int Ed Engl | 2010 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/20544899 |
| Uniform beads with controllable pore sizes for biomedical applications. | Choi SW, Yeh YC, Zhang Y, Sung HW, Xia Y | Small (Weinheim an der Bergstrasse, Germany) | 20578116 | Small | 2010 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/20578116 |
| Dimers of silver nanospheres: facile synthesis and their use as hot spots for surface-enhanced Raman scattering. | Li W, Camargo PH, Lu X, Xia Y | Nano letters | 19143509 | Nano Lett | 2009 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19143509 |
| Production of Ag nanocubes on a scale of 0.1 g per batch by protecting the NaHS-mediated polyol synthesis with argon. | Zhang Q, Cobley C, Au L, McKiernan M, Schwartz A, Wen LP, Chen J, Xia Y | ACS applied materials & interfaces | 20305725 | ACS Appl Mater Interfaces | 2009 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20305725 |
| Targeting gold nanocages to cancer cells for photothermal destruction and drug delivery. | Cobley CM, Au L, Chen J, Xia Y | Expert opinion on drug delivery | 20345327 | Expert Opin Drug Deliv | 2010 May | https://www.ncbi.nlm.nih.gov/pubmed/20345327 |
| Preparation of uniform microspheres using a simple fluidic device and their crystallization into close-packed lattices. | Choi SW, Cheong IW, Kim JH, Xia Y | Small (Weinheim an der Bergstrasse, Germany) | 19189332 | Small | 2009 Apr | https://www.ncbi.nlm.nih.gov/pubmed/19189332 |
| Metal-polymer hybrid colloidal particles with an eccentric structure. | Ohnuma A, Cho EC, Jiang M, Ohtani B, Xia Y | Langmuir : the ACS journal of surfaces and colloids | 19621917 | Langmuir | 2009 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/19621917 |
| Electrospun nanofibers for neural tissue engineering. | Xie J, MacEwan MR, Schwartz AG, Xia Y | Nanoscale | 20648362 | Nanoscale | 2010 Jan | https://www.ncbi.nlm.nih.gov/pubmed/20648362 |
| Gold Nanomaterials at Work in Biomedicine. | Yang X, Yang M, Pang B, Vara M, Xia Y | Chemical reviews | 26293344 | Chem Rev | 2015 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/26293344 |
| In Vivo Evaluation of Adipose-Derived Stromal Cells Delivered with a Nanofiber Scaffold for Tendon-to-Bone Repair. | Lipner J, Shen H, Cavinatto L, Liu W, Havlioglu N, Xia Y, Galatz LM, Thomopoulos S | Tissue engineering. Part A | 26414599 | Tissue Eng Part A | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26414599 |
| Optical-resolution photoacoustic microscopy for volumetric and spectral analysis of histological and immunochemical samples. | Zhang YS, Yao J, Zhang C, Li L, Wang LV, Xia Y | Angewandte Chemie (International ed. in English) | 24961608 | Angew Chem Int Ed Engl | 2014 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/24961608 |
| Facile synthesis of branched au nanostructures by templating against a self-destructive lattice of magnetic fe nanoparticles. | Li Z, Li W, Camargo PH, Xia Y | Angewandte Chemie (International ed. in English) | 18988222 | Angew Chem Int Ed Engl | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/18988222 |
| Gold Nanocages for Biomedical Applications. | Skrabalak SE, Chen J, Au L, Lu X, Li X, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 18648528 | Adv Mater | 2007 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/18648528 |
| Fine tuning the optical properties of Au-Ag nanocages by selectively etching Ag with oxygen and a water-soluble thiol. | Cho EC, Cobley CM, Rycenga M, Xia Y | Journal of materials chemistry | 19829745 | J Mater Chem | 2009 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/19829745 |
| Tailoring the Optical and Catalytic Properties of Gold-Silver Nanoboxes and Nanocages by Introducing Palladium. | Cobley CM, Campbell DJ, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 18568091 | Adv Mater | 2008 Feb | https://www.ncbi.nlm.nih.gov/pubmed/18568091 |
| In vivo quantitative evaluation of the transport kinetics of gold nanocages in a lymphatic system by noninvasive photoacoustic tomography. | Cai X, Li W, Kim CH, Yuan Y, Wang LV, Xia Y | ACS nano | 22054348 | ACS Nano | 2011 Dec 27 | https://www.ncbi.nlm.nih.gov/pubmed/22054348 |
| Quantifying the coverage density of poly(ethylene glycol) chains on the surface of gold nanostructures. | Xia X, Yang M, Wang Y, Zheng Y, Li Q, Chen J, Xia Y | ACS nano | 22148912 | ACS Nano | 2012 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/22148912 |
| SV119-gold nanocage conjugates: a new platform for targeting cancer cells via sigma-2 receptors. | Wang Y, Xu J, Xia X, Yang M, Vangveravong S, Chen J, Mach RH, Xia Y | Nanoscale | 22113350 | Nanoscale | 2012 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/22113350 |
| Microscale polymer bottles corked with a phase-change material for temperature-controlled release. | Hyun DC, Lu P, Choi SI, Jeong U, Xia Y | Angewandte Chemie (International ed. in English) | 23959631 | Angew Chem Int Ed Engl | 2013 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/23959631 |
| Photoacoustic Microscopy in Tissue Engineering. | Cai X, Zhang YS, Xia Y, Wang LV | Materials today (Kidlington, England) | 23766667 | Mater Today (Kidlington) | 2013 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/23766667 |
| Stimuli-Responsive Materials for Controlled Release of Theranostic Agents. | Wang Y, Shim MS, Levinson NS, Sung HW, Xia Y | Advanced functional materials | 25477774 | Adv Funct Mater | 2014 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/25477774 |
| The mechanics of PLGA nanofiber scaffolds with biomimetic gradients in mineral for tendon-to-bone repair. | Lipner J, Liu W, Liu Y, Boyle J, Genin GM, Xia Y, Thomopoulos S | Journal of the mechanical behavior of biomedical materials | 25194525 | J Mech Behav Biomed Mater | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25194525 |
| Seeing Through the Surface: Non-invasive Characterization of Biomaterial-Tissue Interactions Using Photoacoustic Microscopy. | Zhang YS, Wang LV, Xia Y | Annals of biomedical engineering | 26471785 | Ann Biomed Eng | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26471785 |
| Radiolabeling of Gold Nanocages for Potential Applications in Tracking, Diagnosis, and Image-Guided Therapy. | Qiu J, Liu Y, Xia Y | Advanced healthcare materials | 33470560 | Adv Healthc Mater | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/33470560 |
| Electrospun nanofibers for regenerative medicine. | Liu W, Thomopoulos S, Xia Y | Advanced healthcare materials | 23184683 | Adv Healthc Mater | 2012 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/23184683 |
| Neovascularization in biodegradable inverse opal scaffolds with uniform and precisely controlled pore sizes. | Choi SW, Zhang Y, Macewan MR, Xia Y | Advanced healthcare materials | 23184495 | Adv Healthc Mater | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23184495 |
| Gold nanocages as contrast agents for photoacoustic imaging. | Li W, Brown PK, Wang LV, Xia Y | Contrast media & molecular imaging | 22025337 | Contrast Media Mol Imaging | 2011 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/22025337 |
| Noninvasive photoacoustic microscopy of living cells in two and three dimensions through enhancement by a metabolite dye. | Zhang Y, Cai X, Wang Y, Zhang C, Li L, Choi SW, Wang LV, Xia Y | Angewandte Chemie (International ed. in English) | 21681876 | Angew Chem Int Ed Engl | 2011 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/21681876 |
| Fabrication of Density Gradients of Biodegradable Polymer Microparticles and Their Use in Guiding Neurite Outgrowth. | Li X, Macewan MR, Xie J Dr, Siewe D, Yuan X, Xia Y | Advanced functional materials | 21687818 | Adv Funct Mater | 2010 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/21687818 |
| A plasmon-assisted optofluidic (PAOF) system for measuring the photothermal conversion efficiencies of gold nanostructures and controlling an electrical switch. | Zeng J, Goldfeld D, Xia Y | Angewandte Chemie (International ed. in English) | 23494970 | Angew Chem Int Ed Engl | 2013 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/23494970 |
| Gold Nanocages: A Novel Class of Multifunctional Nanomaterials for Theranostic Applications. | Chen J, Yang M, Zhang Q, Cho EC, Cobley CM, Kim C, Glaus C, Wang LV, Welch MJ, Xia Y | Advanced functional materials | 33907543 | Adv Funct Mater | 2010 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/33907543 |
| Inverse Opal Scaffolds and Their Biomedical Applications. | Zhang YS, Zhu C, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 28649794 | Adv Mater | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28649794 |
| Isolating and probing the hot spot formed between two silver nanocubes. | Camargo PH, Rycenga M, Au L, Xia Y | Angewandte Chemie (International ed. in English) | 19199309 | Angew Chem Int Ed Engl | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19199309 |
| Understanding the SERS Effects of Single Silver Nanoparticles and Their Dimers, One at a Time. | Rycenga M, Camargo PH, Li W, Moran CH, Xia Y | The journal of physical chemistry letters | 20368749 | J Phys Chem Lett | 2010 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/20368749 |
| Investigation of neovascularization in three-dimensional porous scaffolds in vivo by a combination of multiscale photoacoustic microscopy and optical coherence tomography. | Cai X, Zhang Y, Li L, Choi SW, MacEwan MR, Yao J, Kim C, Xia Y, Wang LV | Tissue engineering. Part C, Methods | 22838500 | Tissue Eng Part C Methods | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22838500 |
| 25th anniversary article: galvanic replacement: a simple and versatile route to hollow nanostructures with tunable and well-controlled properties. | Xia X, Wang Y, Ruditskiy A, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 24027074 | Adv Mater | 2013 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/24027074 |
| Silver nanocube on gold microplate as a well-defined and highly active substrate for SERS detection. | Xia X, Rycenga M, Qin D, Xia Y | Journal of materials chemistry. C | 24187611 | J Mater Chem C Mater | 2013 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/24187611 |
| Non-invasive and in situ characterization of the degradation of biomaterial scaffolds by volumetric photoacoustic microscopy. | Zhang YS, Cai X, Yao J, Xing W, Wang LV, Xia Y | Angewandte Chemie (International ed. in English) | 24130155 | Angew Chem Int Ed Engl | 2014 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/24130155 |
| Protein-protected Au clusters as a new class of nanoscale biosensor for label-free fluorescence detection of proteases. | Wang Y, Wang Y, Zhou F, Kim P, Xia Y | Small (Weinheim an der Bergstrasse, Germany) | 22969016 | Small | 2012 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/22969016 |
| Using well-defined Ag nanocubes as substrates to quantify the spatial resolution and penetration depth of surface-enhanced Raman scattering imaging. | Moran CH, Rycenga M, Xia X, Cobley CM, Xia Y | Nanotechnology | 24334508 | Nanotechnology | 2014 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/24334508 |
| Emerging applications of phase-change materials (PCMs): teaching an old dog new tricks. | Hyun DC, Levinson NS, Jeong U, Xia Y | Angewandte Chemie (International ed. in English) | 24470287 | Angew Chem Int Ed Engl | 2014 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/24470287 |
| Phase-Change Materials for Controlled Release and Related Applications. | Qiu J, Huo D, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 32383215 | Adv Mater | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32383215 |
| Inorganic nanoparticle-based contrast agents for molecular imaging. | Cho EC, Glaus C, Chen J, Welch MJ, Xia Y | Trends in molecular medicine | 21074494 | Trends Mol Med | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21074494 |
| Synthesis and Optical Properties of Cubic Gold Nanoframes. | Au L, Chen Y, Zhou F, Camargo PH, Lim B, Li ZY, Ginger DS, Xia Y | Nano research | 20200595 | Nano Res | 2008 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/20200595 |
| Chitosan-Based Inverse Opals: Three-Dimensional Scaffolds with Uniform Pore Structures for Cell Culture. | Choi SW, Xie J, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 19710950 | Adv Mater | 2009 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/19710950 |
| Chronic label-free volumetric photoacoustic microscopy of melanoma cells in three-dimensional porous scaffolds. | Zhang Y, Cai X, Choi SW, Kim C, Wang LV, Xia Y | Biomaterials | 20727581 | Biomaterials | 2010 Nov | https://www.ncbi.nlm.nih.gov/pubmed/20727581 |
| Facile synthesis of Ag nanocubes and Au nanocages. | Skrabalak SE, Au L, Li X, Xia Y | Nature protocols | 17853874 | Nat Protoc | 2007 | https://www.ncbi.nlm.nih.gov/pubmed/17853874 |
| A facile synthesis of asymmetric hybrid colloidal particles. | Ohnuma A, Cho EC, Camargo PH, Au L, Ohtani B, Xia Y | Journal of the American Chemical Society | 19140763 | J Am Chem Soc | 2009 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/19140763 |
| Gold nanocages covered with thermally-responsive polymers for controlled release by high-intensity focused ultrasound. | Li W, Cai X, Kim C, Sun G, Zhang Y, Deng R, Yang M, Chen J, Achilefu S, Wang LV, Xia Y | Nanoscale | 21321760 | Nanoscale | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21321760 |
| An enzyme-sensitive probe for photoacoustic imaging and fluorescence detection of protease activity. | Xia X, Yang M, Oetjen LK, Zhang Y, Li Q, Chen J, Xia Y | Nanoscale | 21225037 | Nanoscale | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21225037 |
| The effect of sedimentation and diffusion on cellular uptake of gold nanoparticles. | Cho EC, Zhang Q, Xia Y | Nature nanotechnology | 21516092 | Nat Nanotechnol | 2011 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/21516092 |
| Putting Electrospun Nanofibers to Work for Biomedical Research. | Xie J, Li X, Xia Y | Macromolecular rapid communications | 20011452 | Macromol Rapid Commun | 2008 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/20011452 |
| Seed-mediated synthesis of truncated gold decahedrons with a AuCl/oleylamine complex as precursor. | Ma Y, Zeng J, Li W, McKiernan M, Xie Z, Xia Y | Advanced materials (Deerfield Beach, Fla.) | 20301132 | Adv Mater | 2010 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/20301132 |
| Dissolving Ag from Au-Ag Alloy Nanoboxes with H(2)O(2): A Method for Both Tailoring the Optical Properties and Measuring the H(2)O(2) Concentration. | Zhang Q, Cobley CM, Zeng J, Wen LP, Chen J, Xia Y | The journal of physical chemistry. C, Nanomaterials and interfaces | 20495675 | J Phys Chem C Nanomater Interfaces | 2010 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/20495675 |
| Enhancing the Tactile and Near-Infrared Sensing Capabilities of Electrospun PVDF Nanofibers with the Use of Gold Nanocages. | Li H, Wu T, Xie M, Shi Y, Shen S, Zhao M, Yang X, Figueroa-Cosme LM, Ke Q, Xia Y | Journal of materials chemistry. C | 30911394 | J Mater Chem C Mater | 2018 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/30911394 |
| Nanomaterial-Enabled Photothermal Heating and Its Use for Cancer Therapy via Localized Hyperthermia. | Shen S, Qiu J, Huo D, Xia Y | Small (Weinheim an der Bergstrasse, Germany) | 37803412 | Small | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/37803412 |
| Alpha-Synuclein conformation affects its tyrosine-dependent oxidative aggregation. | Ruf RA, Lutz EA, Zigoneanu IG, Pielak GJ | Biochemistry | 19049426 | Biochemistry | 2008 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/19049426 |
| Protein nuclear magnetic resonance under physiological conditions. | Pielak GJ, Li C, Miklos AC, Schlesinger AP, Slade KM, Wang GF, Zigoneanu IG | Biochemistry | 19113834 | Biochemistry | 2009 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/19113834 |
| Volume exclusion and soft interaction effects on protein stability under crowded conditions. | Miklos AC, Li C, Sharaf NG, Pielak GJ | Biochemistry | 20672856 | Biochemistry | 2010 Aug 24 | https://www.ncbi.nlm.nih.gov/pubmed/20672856 |
| Residue-level interrogation of macromolecular crowding effects on protein stability. | Charlton LM, Barnes CO, Li C, Orans J, Young GB, Pielak GJ | Journal of the American Chemical Society | 18459780 | J Am Chem Soc | 2008 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/18459780 |
| Interaction of α-synuclein and a cell penetrating fusion peptide with higher eukaryotic cell membranes assessed by ¹⁹F NMR. | Zigoneanu IG, Pielak GJ | Molecular pharmaceutics | 22376087 | Mol Pharm | 2012 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/22376087 |
| Interaction of α-synuclein with vesicles that mimic mitochondrial membranes. | Zigoneanu IG, Yang YJ, Krois AS, Haque E, Pielak GJ | Biochimica et biophysica acta | 22155643 | Biochim Biophys Acta | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22155643 |
| Protein (19)F NMR in Escherichia coli. | Li C, Wang GF, Wang Y, Creager-Allen R, Lutz EA, Scronce H, Slade KM, Ruf RA, Mehl RA, Pielak GJ | Journal of the American Chemical Society | 20050707 | J Am Chem Soc | 2010 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/20050707 |
| Quantifying green fluorescent protein diffusion in Escherichia coli by using continuous photobleaching with evanescent illumination. | Slade KM, Steele BL, Pielak GJ, Thompson NL | The journal of physical chemistry. B | 19296673 | J Phys Chem B | 2009 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/19296673 |
| Translational and rotational diffusion of a small globular protein under crowded conditions. | Li C, Wang Y, Pielak GJ | The journal of physical chemistry. B | 19791823 | J Phys Chem B | 2009 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/19791823 |
| Differential dynamical effects of macromolecular crowding on an intrinsically disordered protein and a globular protein: implications for in-cell NMR spectroscopy. | Li C, Charlton LM, Lakkavaram A, Seagle C, Wang G, Young GB, Macdonald JM, Pielak GJ | Journal of the American Chemical Society | 18419123 | J Am Chem Soc | 2008 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/18419123 |
| Probing the micelle-bound aggregation-prone state of α-synuclein with (19)F NMR spectroscopy. | Wang GF, Li C, Pielak GJ | Chembiochem : a European journal of chemical biology | 20730847 | Chembiochem | 2010 Sep 24 | https://www.ncbi.nlm.nih.gov/pubmed/20730847 |
| In-cell protein NMR and protein leakage. | Barnes CO, Pielak GJ | Proteins | 21120863 | Proteins | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21120863 |
| Effects of proteins on protein diffusion. | Wang Y, Li C, Pielak GJ | Journal of the American Chemical Society | 20560582 | J Am Chem Soc | 2010 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/20560582 |
| Disordered Protein Diffusion under Crowded Conditions. | Wang Y, Benton LA, Singh V, Pielak GJ | The journal of physical chemistry letters | 23185649 | J Phys Chem Lett | 2012 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/23185649 |
| Using NMR to distinguish viscosity effects from nonspecific protein binding under crowded conditions. | Li C, Pielak GJ | Journal of the American Chemical Society | 19140727 | J Am Chem Soc | 2009 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/19140727 |
| A bioreactor for in-cell protein NMR. | Sharaf NG, Barnes CO, Charlton LM, Young GB, Pielak GJ | Journal of magnetic resonance (San Diego, Calif. : 1997) | 19910228 | J Magn Reson | 2010 Feb | https://www.ncbi.nlm.nih.gov/pubmed/19910228 |
| Effects of recombinant protein expression on green fluorescent protein diffusion in Escherichia coli. | Slade KM, Baker R, Chua M, Thompson NL, Pielak GJ | Biochemistry | 19413350 | Biochemistry | 2009 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/19413350 |
| In situ structural characterization of a recombinant protein in native Escherichia coli membranes with solid-state magic-angle-spinning NMR. | Fu R, Wang X, Li C, Santiago-Miranda AN, Pielak GJ, Tian F | Journal of the American Chemical Society | 21774553 | J Am Chem Soc | 2011 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/21774553 |
| Macromolecular crowding fails to fold a globular protein in cells. | Schlesinger AP, Wang Y, Tadeo X, Millet O, Pielak GJ | Journal of the American Chemical Society | 21534566 | J Am Chem Soc | 2011 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/21534566 |
| 19F NMR studies of alpha-synuclein conformation and fibrillation. | Li C, Lutz EA, Slade KM, Ruf RA, Wang GF, Pielak GJ | Biochemistry | 19655784 | Biochemistry | 2009 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/19655784 |
| Development of antibody surrogates for the treatment of cancers and autoimmune disease. | Kodadek T | Current opinion in chemical biology | 20674470 | Curr Opin Chem Biol | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20674470 |
| Synthetic receptors with antibody-like binding affinities. | Kodadek T | Current opinion in chemical biology | 20674471 | Curr Opin Chem Biol | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/20674471 |
| Identification of a peptoid inhibitor of the proteasome 19S regulatory particle. | Lim HS, Archer CT, Kodadek T | Journal of the American Chemical Society | 17536803 | J Am Chem Soc | 2007 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/17536803 |
| The pharmacophore of a peptoid VEGF receptor 2 antagonist includes both side chain and main chain residues. | Udugamasooriya DG, Dunham G, Ritchie C, Brekken RA, Kodadek T | Bioorganic & medicinal chemistry letters | 18653335 | Bioorg Med Chem Lett | 2008 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/18653335 |
| Selective toxin sequestrants for the treatment of bacterial infections. | Simpson LS, Burdine L, Dutta AK, Feranchak AP, Kodadek T | Journal of the American Chemical Society | 19351156 | J Am Chem Soc | 2009 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/19351156 |
| Identification of candidate IgG biomarkers for Alzheimer's disease via combinatorial library screening. | Reddy MM, Wilson R, Wilson J, Connell S, Gocke A, Hynan L, German D, Kodadek T | Cell | 21215375 | Cell | 2011 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/21215375 |
| High-throughput evaluation of relative cell permeability between peptoids and peptides. | Tan NC, Yu P, Kwon YU, Kodadek T | Bioorganic & medicinal chemistry | 18490170 | Bioorg Med Chem | 2008 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/18490170 |
| Potent and selective photo-inactivation of proteins with peptoid-ruthenium conjugates. | Lee J, Udugamasooriya DG, Lim HS, Kodadek T | Nature chemical biology | 20228793 | Nat Chem Biol | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20228793 |
| Periodate-triggered cross-linking reveals Sug2/Rpt4 as the molecular target of a peptoid inhibitor of the 19S proteasome regulatory particle. | Lim HS, Cai D, Archer CT, Kodadek T | Journal of the American Chemical Society | 17929816 | J Am Chem Soc | 2007 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/17929816 |
| Isolation of antagonists of antigen-specific autoimmune T cell proliferation. | Gocke AR, Udugamasooriya DG, Archer CT, Lee J, Kodadek T | Chemistry & biology | 19942136 | Chem Biol | 2009 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/19942136 |
| Seamless bead to microarray screening: rapid identification of the highest affinity protein ligands from large combinatorial libraries. | Astle JM, Simpson LS, Huang Y, Reddy MM, Wilson R, Connell S, Wilson J, Kodadek T | Chemistry & biology | 20142039 | Chem Biol | 2010 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/20142039 |
| Steroid receptor coactivator-3 expression in lung cancer and its role in the regulation of cancer cell survival and proliferation. | Cai D, Shames DS, Raso MG, Xie Y, Kim YH, Pollack JR, Girard L, Sullivan JP, Gao B, Peyton M, Nanjundan M, Byers L, Heymach J, Mills G, Gazdar AF, Wistuba I, Kodadek T, Minna JD | Cancer research | 20663904 | Cancer Res | 2010 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/20663904 |
| A peptoid antagonist of VEGF receptor 2 recognizes a 'hotspot' in the extracellular domain distinct from the hormone-binding site. | Udugamasooriya DG, Ritchie C, Brekken RA, Kodadek T | Bioorganic & medicinal chemistry | 18501615 | Bioorg Med Chem | 2008 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/18501615 |
| Maternal alloantigens promote the development of tolerogenic fetal regulatory T cells in utero. | Mold JE, Michaëlsson J, Burt TD, Muench MO, Beckerman KP, Busch MP, Lee TH, Nixon DF, McCune JM | Science (New York, N.Y.) | 19056990 | Science | 2008 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/19056990 |
| Transcriptional profiling in pathogenic and non-pathogenic SIV infections reveals significant distinctions in kinetics and tissue compartmentalization. | Lederer S, Favre D, Walters KA, Proll S, Kanwar B, Kasakow Z, Baskin CR, Palermo R, McCune JM, Katze MG | PLoS pathogens | 19214219 | PLoS Pathog | 2009 Feb | https://www.ncbi.nlm.nih.gov/pubmed/19214219 |
| IFN-alpha-induced upregulation of CCR5 leads to expanded HIV tropism in vivo. | Stoddart CA, Keir ME, McCune JM | PLoS pathogens | 20174557 | PLoS Pathog | 2010 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/20174557 |
| Direct measurement of T-cell receptor repertoire diversity with AmpliCot. | Baum PD, McCune JM | Nature methods | 17060913 | Nat Methods | 2006 Nov | https://www.ncbi.nlm.nih.gov/pubmed/17060913 |
| Cytotrophoblast induction of arterial apoptosis and lymphangiogenesis in an in vivo model of human placentation. | Red-Horse K, Rivera J, Schanz A, Zhou Y, Winn V, Kapidzic M, Maltepe E, Okazaki K, Kochman R, Vo KC, Giudice L, Erlebacher A, McCune JM, Stoddart CA, Fisher SJ | The Journal of clinical investigation | 16998586 | J Clin Invest | 2006 Oct | https://www.ncbi.nlm.nih.gov/pubmed/16998586 |
| IL-2 production correlates with effector cell differentiation in HIV-specific CD8+ T cells. | Nomura LE, Emu B, Hoh R, Haaland P, Deeks SG, Martin JN, McCune JM, Nixon DF, Maecker HT | AIDS research and therapy | 16859558 | AIDS Res Ther | 2006 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/16859558 |
| Abacavir increases platelet reactivity via competitive inhibition of soluble guanylyl cyclase. | Baum PD, Sullam PM, Stoddart CA, McCune JM | AIDS (London, England) | 21941165 | AIDS | 2011 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/21941165 |
| Design, construction, and validation of a modular library of sequence diversity standards for polymerase chain reaction. | Baum PD, Young JJ, Zhang Q, Kasakow Z, McCune JM | Analytical biochemistry | 21111699 | Anal Biochem | 2011 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/21111699 |
| Measurement of absolute T cell receptor rearrangement diversity. | Baum PD, Young JJ, McCune JM | Journal of immunological methods | 21385585 | J Immunol Methods | 2011 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/21385585 |
| HIV-specific CD4+ T cells may contribute to viral persistence in HIV controllers. | Hunt PW, Hatano H, Sinclair E, Lee TH, Busch MP, Martin JN, McCune JM, Deeks SG | Clinical infectious diseases : an official publication of the Infectious Diseases Society of America | 21245154 | Clin Infect Dis | 2011 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/21245154 |
| Continuous Antigenic Stimulation of DO11.10 TCR Transgenic Mice in the Presence or Absence of IL-1β: Possible Implications for Mechanisms of T Cell Depletion in HIV Disease. | Ladell K, Hazenberg MD, Fitch M, Emson C, McEvoy-Hein Asgarian BK, Mold JE, Miller C, Busch R, Price DA, Hellerstein MK, McCune JM | Journal of immunology (Baltimore, Md. : 1950) | 26416271 | J Immunol | 2015 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/26416271 |
| IL-7 production in murine lymphatic endothelial cells and induction in the setting of peripheral lymphopenia. | Miller CN, Hartigan-O'Connor DJ, Lee MS, Laidlaw G, Cornelissen IP, Matloubian M, Coughlin SR, McDonald DM, McCune JM | International immunology | 23657000 | Int Immunol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23657000 |
| Increased circulating interleukin-7 levels in HIV-1-infected women. | Napolitano LA, Burt TD, Bacchetti P, Barrón Y, French AL, Kovacs A, Anastos K, Young M, McCune JM, Greenblatt RM | Journal of acquired immune deficiency syndromes (1999) | 16284535 | J Acquir Immune Defic Syndr | 2005 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/16284535 |
| Higher CD27+CD8+ T cells percentages during suppressive antiretroviral therapy predict greater subsequent CD4+ T cell recovery in treated HIV infection. | Seu L, Ortiz GM, Epling L, Sinclair E, Swainson LA, Bajpai UD, Huang Y, Deeks SG, Hunt PW, Martin JN, McCune JM | PloS one | 24391889 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24391889 |
| Therapeutic helminth infection of macaques with idiopathic chronic diarrhea alters the inflammatory signature and mucosal microbiota of the colon. | Broadhurst MJ, Ardeshir A, Kanwar B, Mirpuri J, Gundra UM, Leung JM, Wiens KE, Vujkovic-Cvijin I, Kim CC, Yarovinsky F, Lerche NW, McCune JM, Loke P | PLoS pathogens | 23166490 | PLoS Pathog | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23166490 |
| Dysbiosis of the gut microbiota is associated with HIV disease progression and tryptophan catabolism. | Vujkovic-Cvijin I, Dunham RM, Iwai S, Maher MC, Albright RG, Broadhurst MJ, Hernandez RD, Lederman MM, Huang Y, Somsouk M, Deeks SG, Hunt PW, Lynch SV, McCune JM | Science translational medicine | 23843452 | Sci Transl Med | 2013 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/23843452 |
| Cytomegalovirus-specific T cells persist at very high levels during long-term antiretroviral treatment of HIV disease. | Naeger DM, Martin JN, Sinclair E, Hunt PW, Bangsberg DR, Hecht F, Hsue P, McCune JM, Deeks SG | PloS one | 20126452 | PLoS One | 2010 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/20126452 |
| Growth hormone enhances thymic function in HIV-1-infected adults. | Napolitano LA, Schmidt D, Gotway MB, Ameli N, Filbert EL, Ng MM, Clor JL, Epling L, Sinclair E, Baum PD, Li K, Killian ML, Bacchetti P, McCune JM | The Journal of clinical investigation | 18292808 | J Clin Invest | 2008 Mar | https://www.ncbi.nlm.nih.gov/pubmed/18292808 |
| HIV-induced changes in T cell signaling pathways. | Schweneker M, Favre D, Martin JN, Deeks SG, McCune JM | Journal of immunology (Baltimore, Md. : 1950) | 18453567 | J Immunol | 2008 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/18453567 |
| Upregulation of retinal dehydrogenase 2 in alternatively activated macrophages during retinoid-dependent type-2 immunity to helminth infection in mice. | Broadhurst MJ, Leung JM, Lim KC, Girgis NM, Gundra UM, Fallon PG, Premenko-Lanier M, McKerrow JH, McCune JM, Loke P | PLoS pathogens | 22927819 | PLoS Pathog | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22927819 |
| Hematopoietic-stem-cell-based gene therapy for HIV disease. | Kiem HP, Jerome KR, Deeks SG, McCune JM | Cell stem cell | 22305563 | Cell Stem Cell | 2012 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/22305563 |
| Increased carotid intima-media thickness in HIV patients is associated with increased cytomegalovirus-specific T-cell responses. | Hsue PY, Hunt PW, Sinclair E, Bredt B, Franklin A, Killian M, Hoh R, Martin JN, McCune JM, Waters DD, Deeks SG | AIDS (London, England) | 17117013 | AIDS | 2006 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/17117013 |
| Preclinical evaluation of HIV eradication strategies in the simian immunodeficiency virus-infected rhesus macaque: a pilot study testing inhibition of indoleamine 2,3-dioxygenase. | Dunham RM, Gordon SN, Vaccari M, Piatak M, Huang Y, Deeks SG, Lifson J, Franchini G, McCune JM | AIDS research and human retroviruses | 22924680 | AIDS Res Hum Retroviruses | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/22924680 |
| Hydroxychloroquine is associated with impaired interferon-alpha and tumor necrosis factor-alpha production by plasmacytoid dendritic cells in systemic lupus erythematosus. | Sacre K, Criswell LA, McCune JM | Arthritis research & therapy | 22734582 | Arthritis Res Ther | 2012 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/22734582 |
| SIV replication in the infected rhesus macaque is limited by the size of the preexisting TH17 cell compartment. | Hartigan-O'Connor DJ, Abel K, Van Rompay KK, Kanwar B, McCune JM | Science translational medicine | 22649090 | Sci Transl Med | 2012 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/22649090 |
| Levels of circulating myeloid subpopulations and of heme oxygenase-1 do not predict CD4(+) T cell recovery after the initiation of antiretroviral therapy for HIV disease. | Seu L, Ortiz GM, Burt TD, Deeks SG, Martin JN, McCune JM | AIDS research and therapy | 25180041 | AIDS Res Ther | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25180041 |
| Immune activation, CD4+ T cell counts, and viremia exhibit oscillatory patterns over time in patients with highly resistant HIV infection. | Kitchen CM, Yeghiazarian L, Hoh R, McCune JM, Sinclair E, Martin JN, Deeks SG | PloS one | 21701594 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21701594 |
| A low T regulatory cell response may contribute to both viral control and generalized immune activation in HIV controllers. | Hunt PW, Landay AL, Sinclair E, Martinson JA, Hatano H, Emu B, Norris PJ, Busch MP, Martin JN, Brooks C, McCune JM, Deeks SG | PloS one | 21305005 | PLoS One | 2011 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/21305005 |
| Fetal and adult hematopoietic stem cells give rise to distinct T cell lineages in humans. | Mold JE, Venkatasubrahmanyam S, Burt TD, Michaëlsson J, Rivera JM, Galkina SA, Weinberg K, Stoddart CA, McCune JM | Science (New York, N.Y.) | 21164017 | Science | 2010 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/21164017 |
| Variations in the heme oxygenase-1 microsatellite polymorphism are associated with plasma CD14 and viral load in HIV-infected African-Americans. | Seu L, Burt TD, Witte JS, Martin JN, Deeks SG, McCune JM | Genes and immunity | 22048453 | Genes Immun | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22048453 |
| HIV disease progression correlates with the generation of dysfunctional naive CD8(low) T cells. | Favre D, Stoddart CA, Emu B, Hoh R, Martin JN, Hecht FM, Deeks SG, McCune JM | Blood | 21200021 | Blood | 2011 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/21200021 |
| A randomized, controlled trial of raltegravir intensification in antiretroviral-treated, HIV-infected patients with a suboptimal CD4+ T cell response. | Hatano H, Hayes TL, Dahl V, Sinclair E, Lee TH, Hoh R, Lampiris H, Hunt PW, Palmer S, McCune JM, Martin JN, Busch MP, Shacklett BL, Deeks SG | The Journal of infectious diseases | 21402547 | J Infect Dis | 2011 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/21402547 |
| Tryptophan catabolism by indoleamine 2,3-dioxygenase 1 alters the balance of TH17 to regulatory T cells in HIV disease. | Favre D, Mold J, Hunt PW, Kanwar B, Loke P, Seu L, Barbour JD, Lowe MM, Jayawardene A, Aweeka F, Huang Y, Douek DC, Brenchley JM, Martin JN, Hecht FM, Deeks SG, McCune JM | Science translational medicine | 20484731 | Sci Transl Med | 2010 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/20484731 |
| CD57(+) Memory T Cells Proliferate In Vivo. | Ahmed R, Miners KL, Lahoz-Beneytez J, Jones RE, Roger L, Baboonian C, Zhang Y, Wang ECY, Hellerstein MK, McCune JM, Baird DM, Price DA, Macallan DC, Asquith B, Ladell K | Cell reports | 33326780 | Cell Rep | 2020 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/33326780 |
| Rooted in risk: genetic predisposition for low-density lipoprotein cholesterol level associates with diminished low-density lipoprotein cholesterol response to statin treatment. | Smit RA, Postmus I, Trompet S, Barnes MR, Warren H, Arsenault BJ, Chasman DI, Cupples LA, Hitman GA, Krauss RM, Li X, Psaty BM, Stein CM, Rotter JI, Jukema JW | Pharmacogenomics | 27648687 | Pharmacogenomics | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27648687 |
| Central memory CD8+ T cells appear to have a shorter lifespan and reduced abundance as a function of HIV disease progression. | Ladell K, Hellerstein MK, Cesar D, Busch R, Boban D, McCune JM | Journal of immunology (Baltimore, Md. : 1950) | 18523254 | J Immunol | 2008 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/18523254 |
| Critical loss of the balance between Th17 and T regulatory cell populations in pathogenic SIV infection. | Favre D, Lederer S, Kanwar B, Ma ZM, Proll S, Kasakow Z, Mold J, Swainson L, Barbour JD, Baskin CR, Palermo R, Pandrea I, Miller CJ, Katze MG, McCune JM | PLoS pathogens | 19214220 | PLoS Pathog | 2009 Feb | https://www.ncbi.nlm.nih.gov/pubmed/19214220 |
| Expression of the autoimmune susceptibility gene FcRL3 on human regulatory T cells is associated with dysfunction and high levels of programmed cell death-1. | Swainson LA, Mold JE, Bajpai UD, McCune JM | Journal of immunology (Baltimore, Md. : 1950) | 20190142 | J Immunol | 2010 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/20190142 |
| Breaking free of sample size dogma to perform innovative translational research. | Bacchetti P, Deeks SG, McCune JM | Science translational medicine | 21677197 | Sci Transl Med | 2011 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/21677197 |
| Loss of T cell responses following long-term cryopreservation. | Owen RE, Sinclair E, Emu B, Heitman JW, Hirschkorn DF, Epling CL, Tan QX, Custer B, Harris JM, Jacobson MA, McCune JM, Martin JN, Hecht FM, Deeks SG, Norris PJ | Journal of immunological methods | 17707394 | J Immunol Methods | 2007 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/17707394 |
| Antiviral antibodies are necessary for control of simian immunodeficiency virus replication. | Miller CJ, Genescà M, Abel K, Montefiori D, Forthal D, Bost K, Li J, Favre D, McCune JM | Journal of virology | 17329327 | J Virol | 2007 May | https://www.ncbi.nlm.nih.gov/pubmed/17329327 |
| The role of transplacental microtransfusions of maternal lymphocytes in in utero HIV transmission. | Lee TH, Chafets DM, Biggar RJ, McCune JM, Busch MP | Journal of acquired immune deficiency syndromes (1999) | 20683195 | J Acquir Immune Defic Syndr | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20683195 |
| Gag p27-specific B- and T-cell responses in Simian immunodeficiency virus SIVagm-infected African green monkeys. | Lozano Reina JM, Favre D, Kasakow Z, Mayau V, Nugeyre MT, Ka T, Faye A, Miller CJ, Scott-Algara D, McCune JM, Barré-Sinoussi F, Diop OM, Müller-Trutwin MC | Journal of virology | 19109377 | J Virol | 2009 Mar | https://www.ncbi.nlm.nih.gov/pubmed/19109377 |
| Suberoylanilide hydroxamic acid reactivates HIV from latently infected cells. | Contreras X, Schweneker M, Chen CS, McCune JM, Deeks SG, Martin J, Peterlin BM | The Journal of biological chemistry | 19136668 | J Biol Chem | 2009 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/19136668 |
| Single-Cell Mapping of Progressive Fetal-to-Adult Transition in Human Naive T Cells. | Bunis DG, Bronevetsky Y, Krow-Lucal E, Bhakta NR, Kim CC, Nerella S, Jones N, Mendoza VF, Bryson YJ, Gern JE, Rutishauser RL, Ye CJ, Sirota M, McCune JM, Burt TD | Cell reports | 33406429 | Cell Rep | 2021 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/33406429 |
| Regulation of T cell responses in the developing human fetus. | Michaëlsson J, Mold JE, McCune JM, Nixon DF | Journal of immunology (Baltimore, Md. : 1950) | 16670279 | J Immunol | 2006 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/16670279 |
| A functional variant in FCRL3 is associated with higher Fc receptor-like 3 expression on T cell subsets and rheumatoid arthritis disease activity. | Bajpai UD, Swainson LA, Mold JE, Graf JD, Imboden JB, McCune JM | Arthritis and rheumatism | 22392608 | Arthritis Rheum | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22392608 |
| Correlating cellular and molecular signatures of mucosal immunity that distinguish HIV controllers from noncontrollers. | Loke P, Favre D, Hunt PW, Leung JM, Kanwar B, Martin JN, Deeks SG, McCune JM | Blood | 20160163 | Blood | 2010 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/20160163 |
| Tim-3 expression defines a novel population of dysfunctional T cells with highly elevated frequencies in progressive HIV-1 infection. | Jones RB, Ndhlovu LC, Barbour JD, Sheth PM, Jha AR, Long BR, Wong JC, Satkunarajah M, Schweneker M, Chapman JM, Gyenes G, Vali B, Hyrcza MD, Yue FY, Kovacs C, Sassi A, Loutfy M, Halpenny R, Persad D, Spotts G, Hecht FM, Chun TW, McCune JM, Kaul R, Rini JM, Nixon DF, Ostrowski MA | The Journal of experimental medicine | 19001139 | J Exp Med | 2008 Nov 24 | https://www.ncbi.nlm.nih.gov/pubmed/19001139 |
| Human CD4+ regulatory T cells express lower levels of the IL-7 receptor alpha chain (CD127), allowing consistent identification and sorting of live cells. | Hartigan-O'Connor DJ, Poon C, Sinclair E, McCune JM | Journal of immunological methods | 17173927 | J Immunol Methods | 2007 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/17173927 |
| Prevalence of CXCR4 tropism among antiretroviral-treated HIV-1-infected patients with detectable viremia. | Hunt PW, Harrigan PR, Huang W, Bates M, Williamson DW, McCune JM, Price RW, Spudich SS, Lampiris H, Hoh R, Leigler T, Martin JN, Deeks SG | The Journal of infectious diseases | 16960780 | J Infect Dis | 2006 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/16960780 |
| Suppression of SIV-specific CD4+ T cells by infant but not adult macaque regulatory T cells: implications for SIV disease progression. | Hartigan-O'Connor DJ, Abel K, McCune JM | The Journal of experimental medicine | 17954571 | J Exp Med | 2007 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/17954571 |
| Relationship between T cell activation and CD4+ T cell count in HIV-seropositive individuals with undetectable plasma HIV RNA levels in the absence of therapy. | Hunt PW, Brenchley J, Sinclair E, McCune JM, Roland M, Page-Shafer K, Hsue P, Emu B, Krone M, Lampiris H, Douek D, Martin JN, Deeks SG | The Journal of infectious diseases | 18171295 | J Infect Dis | 2008 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/18171295 |
| In vivo imaging of mucosal CD4+ T cells using single photon emission computed tomography in a murine model of colitis. | Kanwar B, Gao DW, Hwang AB, Grenert JP, Williams SP, Franc B, McCune JM | Journal of immunological methods | 17964595 | J Immunol Methods | 2008 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/17964595 |
| Blood T-cell receptor diversity decreases during the course of HIV infection, but the potential for a diverse repertoire persists. | Baum PD, Young JJ, Schmidt D, Zhang Q, Hoh R, Busch M, Martin J, Deeks S, McCune JM | Blood | 22371879 | Blood | 2012 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/22371879 |
| Cell-based measures of viral persistence are associated with immune activation and programmed cell death protein 1 (PD-1)-expressing CD4+ T cells. | Hatano H, Jain V, Hunt PW, Lee TH, Sinclair E, Do TD, Hoh R, Martin JN, McCune JM, Hecht F, Busch MP, Deeks SG | The Journal of infectious diseases | 23089590 | J Infect Dis | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23089590 |
| A role for cytomegalovirus-specific CD4+CX3CR1+ T cells and cytomegalovirus-induced T-cell immunopathology in HIV-associated atherosclerosis. | Sacre K, Hunt PW, Hsue PY, Maidji E, Martin JN, Deeks SG, Autran B, McCune JM | AIDS (London, England) | 22313962 | AIDS | 2012 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/22313962 |
| Naive human T cells are activated and proliferate in response to the heme oxygenase-1 inhibitor tin mesoporphyrin. | Burt TD, Seu L, Mold JE, Kappas A, McCune JM | Journal of immunology (Baltimore, Md. : 1950) | 20921523 | J Immunol | 2010 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/20921523 |
| IL-22+ CD4+ T cells are associated with therapeutic trichuris trichiura infection in an ulcerative colitis patient. | Broadhurst MJ, Leung JM, Kashyap V, McCune JM, Mahadevan U, McKerrow JH, Loke P | Science translational medicine | 21123809 | Sci Transl Med | 2010 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/21123809 |
| Persistent systemic inflammation and atypical enterocolitis in patients with NEMO syndrome. | Cheng LE, Kanwar B, Tcheurekdjian H, Grenert JP, Muskat M, Heyman MB, McCune JM, Wara DW | Clinical immunology (Orlando, Fla.) | 19375390 | Clin Immunol | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19375390 |
| Evidence for persistent low-level viremia in individuals who control human immunodeficiency virus in the absence of antiretroviral therapy. | Hatano H, Delwart EL, Norris PJ, Lee TH, Dunn-Williams J, Hunt PW, Hoh R, Stramer SL, Linnen JM, McCune JM, Martin JN, Busch MP, Deeks SG | Journal of virology | 18945778 | J Virol | 2009 Jan | https://www.ncbi.nlm.nih.gov/pubmed/18945778 |
| Identification of cinnabarinic acid as a novel endogenous aryl hydrocarbon receptor ligand that drives IL-22 production. | Lowe MM, Mold JE, Kanwar B, Huang Y, Louie A, Pollastri MP, Wang C, Patel G, Franks DG, Schlezinger J, Sherr DH, Silverstone AE, Hahn ME, McCune JM | PloS one | 24498387 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24498387 |
| Exposure to SIV in utero results in reduced viral loads and altered responsiveness to postnatal challenge. | Baker CA, Swainson L, Lin DL, Wong S, Hartigan-O'Connor DJ, Lifson JD, Tarantal AF, McCune JM | Science translational medicine | 26268312 | Sci Transl Med | 2015 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/26268312 |
| Composition and function of T cell subpopulations are slow to change despite effective antiretroviral treatment of HIV disease. | Emu B, Moretto WJ, Hoh R, Krone M, Martin JN, Nixon DF, Deeks SG, McCune JM | PloS one | 24465619 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24465619 |
| Analysis of maternal microchimerism in rhesus monkeys (Macaca mulatta) using real-time quantitative PCR amplification of MHC polymorphisms. | Bakkour S, Baker CA, Tarantal AF, Wen L, Busch MP, Lee TH, McCune JM | Chimerism | 24451553 | Chimerism | 2014 Jan-Mar | https://www.ncbi.nlm.nih.gov/pubmed/24451553 |
| Plasmon-mediated synthesis of silver triangular bipyramids. | Zhang J, Li S, Wu J, Schatz GC, Mirkin CA | Angewandte Chemie (International ed. in English) | 19760687 | Angew Chem Int Ed Engl | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19760687 |
| Regulating immune response using polyvalent nucleic acid-gold nanoparticle conjugates. | Massich MD, Giljohann DA, Seferos DS, Ludlow LE, Horvath CM, Mirkin CA | Molecular pharmaceutics | 19810673 | Mol Pharm | 2009 Nov-Dec | https://www.ncbi.nlm.nih.gov/pubmed/19810673 |
| Curvature-induced base pair "slipping" effects in DNA-nanoparticle hybridization. | Hill HD, Hurst SJ, Mirkin CA | Nano letters | 19072317 | Nano Lett | 2009 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19072317 |
| The role radius of curvature plays in thiolated oligonucleotide loading on gold nanoparticles. | Hill HD, Millstone JE, Banholzer MJ, Mirkin CA | ACS nano | 19236080 | ACS Nano | 2009 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/19236080 |
| Gold nanoparticles for biology and medicine. | Giljohann DA, Seferos DS, Daniel WL, Massich MD, Patel PC, Mirkin CA | Angewandte Chemie (International ed. in English) | 20401880 | Angew Chem Int Ed Engl | 2010 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/20401880 |
| Dynamic interconversion of amorphous microparticles and crystalline rods in salen-based homochiral infinite coordination polymers. | Jeon YM, Heo J, Mirkin CA | Journal of the American Chemical Society | 17523645 | J Am Chem Soc | 2007 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/17523645 |
| Supramolecular allosteric cofacial porphyrin complexes. | Oliveri CG, Gianneschi NC, Nguyen ST, Mirkin CA, Stern CL, Wawrzak Z, Pink M | Journal of the American Chemical Society | 17165783 | J Am Chem Soc | 2006 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/17165783 |
| Dip-pen nanolithography of high-melting-temperature molecules. | Huang L, Chang YH, Kakkassery JJ, Mirkin CA | The journal of physical chemistry. B | 17048882 | J Phys Chem B | 2006 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/17048882 |
| Silver nanoparticle-oligonucleotide conjugates based on DNA with triple cyclic disulfide moieties. | Lee JS, Lytton-Jean AK, Hurst SJ, Mirkin CA | Nano letters | 17571909 | Nano Lett | 2007 Jul | https://www.ncbi.nlm.nih.gov/pubmed/17571909 |
| Pyrene-Appended Fluorescent Tweezers Generated via the Weak-Link Approach and Their Halide Recognition Properties. | Jeon YM, Kim D, Mirkin CA, Golen JA, Rheingold AL | Tetrahedron | 22180669 | Tetrahedron | 2008 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/22180669 |
| An Electrochemical Approach to and the Physical Consequences of Preparing Nanostructures from Gold Nanorods with Smooth Ends. | Banholzer MJ, Li S, Ketter JB, Rozkiewicz DI, Schatz GC, Mirkin CA | The journal of physical chemistry. C, Nanomaterials and interfaces | 22180788 | J Phys Chem C Nanomater Interfaces | 2008 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/22180788 |
| On-wire lithography-generated molecule-based transport junctions: a new testbed for molecular electronics. | Chen X, Jeon YM, Jang JW, Qin L, Huo F, Wei W, Mirkin CA | Journal of the American Chemical Society | 18528994 | J Am Chem Soc | 2008 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/18528994 |
| Mechanistic study of photomediated triangular silver nanoprism growth. | Xue C, Métraux GS, Millstone JE, Mirkin CA | Journal of the American Chemical Society | 18533653 | J Am Chem Soc | 2008 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/18533653 |
| Fluorescence recovery assay for the detection of protein-DNA binding. | Xu X, Zhao Z, Qin L, Wei W, Levine JE, Mirkin CA | Analytical chemistry | 18498181 | Anal Chem | 2008 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/18498181 |
| Polymer pen lithography. | Huo F, Zheng Z, Zheng G, Giam LR, Zhang H, Mirkin CA | Science (New York, N.Y.) | 18703709 | Science | 2008 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/18703709 |
| Heteroligated supramolecular coordination complexes formed via the halide-induced ligand rearrangement reaction. | Oliveri CG, Ulmann PA, Wiester MJ, Mirkin CA | Accounts of chemical research | 18642933 | Acc Chem Res | 2008 Dec | https://www.ncbi.nlm.nih.gov/pubmed/18642933 |
| Surface plasmon-mediated energy transfer in heterogap Au-Ag nanowires. | Wei W, Li S, Qin L, Xue C, Millstone JE, Xu X, Schatz GC, Mirkin CA | Nano letters | 18767888 | Nano Lett | 2008 Oct | https://www.ncbi.nlm.nih.gov/pubmed/18767888 |
| Cellular response of polyvalent oligonucleotide-gold nanoparticle conjugates. | Massich MD, Giljohann DA, Schmucker AL, Patel PC, Mirkin CA | ACS nano | 20860397 | ACS Nano | 2010 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/20860397 |
| Inversion of product selectivity in an enzyme-inspired metallosupramolecular tweezer catalyzed epoxidation reaction. | Ulmann PA, Braunschweig AB, Lee OS, Wiester MJ, Schatz GC, Mirkin CA | Chemical communications (Cambridge, England) | 20448966 | Chem Commun (Camb) | 2009 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/20448966 |
| Redox-activating dip-pen nanolithography (RA-DPN). | Braunschweig AB, Senesi AJ, Mirkin CA | Journal of the American Chemical Society | 19128060 | J Am Chem Soc | 2009 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/19128060 |
| Colorimetric Cu(2+) detection using DNA-modified gold-nanoparticle aggregates as probes and click chemistry. | Xu X, Daniel WL, Wei W, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 20108231 | Small | 2010 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/20108231 |
| Tröger's-base-derived infinite co-ordination polymer microparticles. | Jeon YM, Armatas GS, Kim D, Kanatzidis MG, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 19058289 | Small | 2009 Jan | https://www.ncbi.nlm.nih.gov/pubmed/19058289 |
| Plasmonic focusing in rod-sheath heteronanostructures. | Chen X, Li S, Xue C, Banholzer MJ, Schatz GC, Mirkin CA | ACS nano | 19206253 | ACS Nano | 2009 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/19206253 |
| Carborane-based pincers: synthesis and structure of SeBSe and SBS Pd(II) complexes. | Spokoyny AM, Reuter MG, Stern CL, Ratner MA, Seideman T, Mirkin CA | Journal of the American Chemical Society | 19583431 | J Am Chem Soc | 2009 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/19583431 |
| Surprisingly long-range surface-enhanced Raman scattering (SERS) on Au-Ni multisegmented nanowires. | Wei W, Li S, Millstone JE, Banholzer MJ, Chen X, Xu X, Schatz GC, Mirkin CA | Angewandte Chemie (International ed. in English) | 19431164 | Angew Chem Int Ed Engl | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19431164 |
| Maximizing DNA loading on a range of gold nanoparticle sizes. | Hurst SJ, Lytton-Jean AK, Mirkin CA | Analytical chemistry | 17165821 | Anal Chem | 2006 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/17165821 |
| Thermodynamically controlled separation of polyvalent 2-nm gold nanoparticle-oligonucleotide conjugates. | Lee JS, Seferos DS, Giljohann DA, Mirkin CA | Journal of the American Chemical Society | 18370386 | J Am Chem Soc | 2008 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/18370386 |
| Nonenzymatic detection of bacterial genomic DNA using the bio bar code assay. | Hill HD, Vega RA, Mirkin CA | Analytical chemistry | 17927207 | Anal Chem | 2007 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/17927207 |
| Polyethylene glycol as a novel resist and sacrificial material for generating positive and negative nanostructures. | Sanedrin RG, Huang L, Jang JW, Kakkassery J, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 18563746 | Small | 2008 Jul | https://www.ncbi.nlm.nih.gov/pubmed/18563746 |
| Controlling the lattice parameters of gold nanoparticle FCC crystals with duplex DNA linkers. | Hill HD, Macfarlane RJ, Senesi AJ, Lee B, Park SY, Mirkin CA | Nano letters | 18572967 | Nano Lett | 2008 Aug | https://www.ncbi.nlm.nih.gov/pubmed/18572967 |
| "Three-dimensional hybridization" with polyvalent DNA-gold nanoparticle conjugates. | Hurst SJ, Hill HD, Mirkin CA | Journal of the American Chemical Society | 18710229 | J Am Chem Soc | 2008 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/18710229 |
| Iodide ions control seed-mediated growth of anisotropic gold nanoparticles. | Millstone JE, Wei W, Jones MR, Yoo H, Mirkin CA | Nano letters | 18642955 | Nano Lett | 2008 Aug | https://www.ncbi.nlm.nih.gov/pubmed/18642955 |
| A gold nanoparticle based approach for screening triplex DNA binders. | Han MS, Lytton-Jean AK, Mirkin CA | Journal of the American Chemical Society | 16608320 | J Am Chem Soc | 2006 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/16608320 |
| Reversible Ligand Pairing and Sorting Processes Leading to Heteroligated Palladium(II) Complexes with Hemilabile Ligands. | Ulmann PA, Mirkin CA, DiPasquale AG, Liable-Sands LM, Rheingold AL | Organometallics | 34446977 | Organometallics | 2009 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/34446977 |
| A new approach to amplified telomerase detection with polyvalent oligonucleotide nanoparticle conjugates. | Zheng G, Daniel WL, Mirkin CA | Journal of the American Chemical Society | 18597453 | J Am Chem Soc | 2008 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/18597453 |
| Topographically flat, chemically patterned PDMS stamps made by dip-pen nanolithography. | Zheng Z, Jang JW, Zheng G, Mirkin CA | Angewandte Chemie (International ed. in English) | 19012308 | Angew Chem Int Ed Engl | 2008 | https://www.ncbi.nlm.nih.gov/pubmed/19012308 |
| DNA-gold triangular nanoprism conjugates. | Millstone JE, Georganopoulou DG, Xu X, Wei W, Li S, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 19016498 | Small | 2008 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19016498 |
| Triple-Decker Complexes Formed via the Weak Link Approach. | Jeon YM, Heo J, Brown AM, Mirkin CA | Organometallics | 19060957 | Organometallics | 2006 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/19060957 |
| Separation of tricomponent protein mixtures with triblock nanorods. | Oh BK, Park S, Millstone JE, Lee SW, Lee KB, Mirkin CA | Journal of the American Chemical Society | 16953622 | J Am Chem Soc | 2006 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/16953622 |
| Microarray detection of duplex and triplex DNA binders with DNA-modified gold nanoparticles. | Lytton-Jean AK, Han MS, Mirkin CA | Analytical chemistry | 17614366 | Anal Chem | 2007 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/17614366 |
| Multipole plasmon resonances in gold nanorods. | Payne EK, Shuford KL, Park S, Schatz GC, Mirkin CA | The journal of physical chemistry. B | 16471797 | J Phys Chem B | 2006 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/16471797 |
| In-wire conversion of a metal nanorod segment into an organic semiconductor. | Chen X, Zheng G, Cutler JI, Jang JW, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 19387988 | Small | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19387988 |
| Plasmonically controlled nucleic acid dehybridization with gold nanoprisms. | Jones MR, Millstone JE, Giljohann DA, Seferos DS, Young KL, Mirkin CA | Chemphyschem : a European journal of chemical physics and physical chemistry | 19431161 | Chemphyschem | 2009 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/19431161 |
| On-wire lithography: synthesis, encoding and biological applications. | Banholzer MJ, Qin L, Millstone JE, Osberg KD, Mirkin CA | Nature protocols | 19444241 | Nat Protoc | 2009 | https://www.ncbi.nlm.nih.gov/pubmed/19444241 |
| Complementary electrical and spectroscopic detection assays with on-wire-lithography-based nanostructures. | Zheng G, Chen X, Mirkin CA | Small (Weinheim an der Bergstrasse, Germany) | 19697306 | Small | 2009 Nov | https://www.ncbi.nlm.nih.gov/pubmed/19697306 |
| Using synthetic biology to make cells tomorrow's test tubes. | Garcia HG, Brewster RC, Phillips R | Integrative biology : quantitative biosciences from nano to macro | 26952708 | Integr Biol (Camb) | 2016 Apr 18 | https://www.ncbi.nlm.nih.gov/pubmed/26952708 |
| The influence of promoter architectures and regulatory motifs on gene expression in Escherichia coli. | Rydenfelt M, Garcia HG, Cox RS 3rd, Phillips R | PloS one | 25549361 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25549361 |
| Promoter architecture dictates cell-to-cell variability in gene expression. | Jones DL, Brewster RC, Phillips R | Science (New York, N.Y.) | 25525251 | Science | 2014 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/25525251 |
| Scaling of gene expression with transcription-factor fugacity. | Weinert FM, Brewster RC, Rydenfelt M, Phillips R, Kegel WK | Physical review letters | 25554908 | Phys Rev Lett | 2014 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/25554908 |
| Mapping DNA sequence to transcription factor binding energy in vivo. | Barnes SL, Belliveau NM, Ireland WT, Kinney JB, Phillips R | PLoS computational biology | 30716072 | PLoS Comput Biol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30716072 |
| Tuning Transcriptional Regulation through Signaling: A Predictive Theory of Allosteric Induction. | Razo-Mejia M, Barnes SL, Belliveau NM, Chure G, Einav T, Lewis M, Phillips R | Cell systems | 29574055 | Cell Syst | 2018 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/29574055 |
| Anionic Lipids Impact RAS-Binding Site Accessibility and Membrane Binding Affinity of CRAF RBD-CRD. | Travers T, López CA, Agamasu C, Hettige JJ, Messing S, García AE, Stephen AG, Gnanakaran S | Biophysical journal | 32649863 | Biophys J | 2020 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/32649863 |
| Monod-Wyman-Changeux Analysis of Ligand-Gated Ion Channel Mutants. | Einav T, Phillips R | The journal of physical chemistry. B | 28134524 | J Phys Chem B | 2017 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/28134524 |
| Biological Processes as Exploratory Dynamics. | Kondev J, Kirschner M, Garcia HG, Salmon GL, Phillips R | ArXiv | 40503020 | ArXiv | 2025 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/40503020 |
| Effect of promoter architecture on the cell-to-cell variability in gene expression. | Sanchez A, Garcia HG, Jones D, Phillips R, Kondev J | PLoS computational biology | 21390269 | PLoS Comput Biol | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21390269 |
| Real-time observations of single bacteriophage lambda DNA ejections in vitro. | Grayson P, Han L, Winther T, Phillips R | Proceedings of the National Academy of Sciences of the United States of America | 17804798 | Proc Natl Acad Sci U S A | 2007 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/17804798 |
| Measuring flux distributions for diffusion in the small-numbers limit. | Seitaridou E, Inamdar MM, Phillips R, Ghosh K, Dill K | The journal of physical chemistry. B | 17295536 | J Phys Chem B | 2007 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/17295536 |
| First-principles calculation of DNA looping in tethered particle experiments. | Towles KB, Beausang JF, Garcia HG, Phillips R, Nelson PC | Physical biology | 19571369 | Phys Biol | 2009 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/19571369 |
| Dynamics of DNA ejection from bacteriophage. | Inamdar MM, Gelbart WM, Phillips R | Biophysical journal | 16679360 | Biophys J | 2006 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/16679360 |
| Exact theory of kinkable elastic polymers. | Wiggins PA, Phillips R, Nelson PC | Physical review. E, Statistical, nonlinear, and soft matter physics | 15783354 | Phys Rev E Stat Nonlin Soft Matter Phys | 2005 Feb | https://www.ncbi.nlm.nih.gov/pubmed/15783354 |
| Transcriptional regulation by the numbers: models. | Bintu L, Buchler NE, Garcia HG, Gerland U, Hwa T, Kondev J, Phillips R | Current opinion in genetics & development | 15797194 | Curr Opin Genet Dev | 2005 Apr | https://www.ncbi.nlm.nih.gov/pubmed/15797194 |
| Transcriptional regulation by the numbers: applications. | Bintu L, Buchler NE, Garcia HG, Gerland U, Hwa T, Kondev J, Kuhlman T, Phillips R | Current opinion in genetics & development | 15797195 | Curr Opin Genet Dev | 2005 Apr | https://www.ncbi.nlm.nih.gov/pubmed/15797195 |
| Biochemistry on a leash: the roles of tether length and geometry in signal integration proteins. | Van Valen D, Haataja M, Phillips R | Biophysical journal | 19217847 | Biophys J | 2009 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/19217847 |
| Predicting the impact of promoter variability on regulatory outputs. | Kreamer NN, Phillips R, Newman DK, Boedicker JQ | Scientific reports | 26675057 | Sci Rep | 2015 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/26675057 |
| Teaching the principles of statistical dynamics. | Ghosh K, Dill KA, Inamdar MM, Seitaridou E, Phillips R | American journal of physics | 23585693 | Am J Phys | 2006 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/23585693 |
| Musings on mechanism: quest for a quark theory of proteins? | Phillips R | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 28963318 | FASEB J | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28963318 |
| Theoretical and experimental dissection of DNA loop-mediated repression. | Boedicker JQ, Garcia HG, Phillips R | Physical review letters | 23383841 | Phys Rev Lett | 2013 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/23383841 |
| Connecting the Dots between Mechanosensitive Channel Abundance, Osmotic Shock, and Survival at Single-Cell Resolution. | Chure G, Lee HJ, Rasmussen A, Phillips R | Journal of bacteriology | 30201782 | J Bacteriol | 2018 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/30201782 |
| Statistical mechanical model of coupled transcription from multiple promoters due to transcription factor titration. | Rydenfelt M, Cox RS 3rd, Garcia H, Phillips R | Physical review. E, Statistical, nonlinear, and soft matter physics | 24580252 | Phys Rev E Stat Nonlin Soft Matter Phys | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24580252 |
| Seeing with an extra sense. | Phillips R | Current biology : CB | 39437733 | Curr Biol | 2024 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/39437733 |
| The Dynamics of Inducible Genetic Circuits(). | Yang Z, Rousseau RJ, Mahdavi SD, Garcia HG, Phillips R | bioRxiv : the preprint server for biology | 40463218 | bioRxiv | 2025 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/40463218 |
| The Environment-Dependent Regulatory Landscape of the E. coli Genome. | Röschinger T, Lee HJ, Pan RW, Solini G, Faizi K, Quan B, Chou TF, Mani M, Quake S, Phillips R | ArXiv | 40463697 | ArXiv | 2025 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/40463697 |
| Volume-exclusion effects in tethered-particle experiments: bead size matters. | Segall DE, Nelson PC, Phillips R | Physical review letters | 16606235 | Phys Rev Lett | 2006 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/16606235 |
| The effect of genome length on ejection forces in bacteriophage lambda. | Grayson P, Evilevitch A, Inamdar MM, Purohit PK, Gelbart WM, Knobler CM, Phillips R | Virology | 16469346 | Virology | 2006 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/16469346 |
| A single-molecule Hershey-Chase experiment. | Van Valen D, Wu D, Chen YJ, Tuson H, Wiggins P, Phillips R | Current biology : CB | 22727695 | Curr Biol | 2012 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/22727695 |
| Morphology and interaction between lipid domains. | Ursell TS, Klug WS, Phillips R | Proceedings of the National Academy of Sciences of the United States of America | 19620730 | Proc Natl Acad Sci U S A | 2009 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/19620730 |
| Membrane mechanics as a probe of ion-channel gating mechanisms. | Reeves D, Ursell T, Sens P, Kondev J, Phillips R | Physical review. E, Statistical, nonlinear, and soft matter physics | 18999449 | Phys Rev E Stat Nonlin Soft Matter Phys | 2008 Oct | https://www.ncbi.nlm.nih.gov/pubmed/18999449 |
| Biological consequences of tightly bent DNA: the other life of a macromolecular celebrity. | Garcia HG, Grayson P, Han L, Inamdar M, Kondev J, Nelson PC, Phillips R, Widom J, Wiggins PA | Biopolymers | 17103419 | Biopolymers | 2007 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/17103419 |
| Probing individual environmental bacteria for viruses by using microfluidic digital PCR. | Tadmor AD, Ottesen EA, Leadbetter JR, Phillips R | Science (New York, N.Y.) | 21719670 | Science | 2011 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/21719670 |
| A feeling for the numbers in biology. | Phillips R, Milo R | Proceedings of the National Academy of Sciences of the United States of America | 20018695 | Proc Natl Acad Sci U S A | 2009 Dec 22 | https://www.ncbi.nlm.nih.gov/pubmed/20018695 |
| Entropic tension in crowded membranes. | Lindén M, Sens P, Phillips R | PLoS computational biology | 22438801 | PLoS Comput Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22438801 |
| Single-cell census of mechanosensitive channels in living bacteria. | Bialecka-Fornal M, Lee HJ, DeBerg HA, Gandhi CS, Phillips R | PloS one | 22427953 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22427953 |
| Trajectory approach to two-state kinetics of single particles on sculpted energy landscapes. | Wu D, Ghosh K, Inamdar M, Lee HJ, Fraser S, Dill K, Phillips R | Physical review letters | 19792475 | Phys Rev Lett | 2009 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/19792475 |
| The rate of osmotic downshock determines the survival probability of bacterial mechanosensitive channel mutants. | Bialecka-Fornal M, Lee HJ, Phillips R | Journal of bacteriology | 25349158 | J Bacteriol | 2015 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/25349158 |
| Directional interactions and cooperativity between mechanosensitive membrane proteins. | Haselwandter CA, Phillips R | Europhysics letters | 25309021 | Europhys Lett | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25309021 |
| Statistical Mechanics of Allosteric Enzymes. | Einav T, Mazutis L, Phillips R | The journal of physical chemistry. B | 27070509 | J Phys Chem B | 2016 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/27070509 |
| Napoleon Is in Equilibrium. | Phillips R | Annual review of condensed matter physics | 27429713 | Annu Rev Condens Matter Phys | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/27429713 |
| Figure 1 Theory Meets Figure 2 Experiments in the Study of Gene Expression. | Phillips R, Belliveau NM, Chure G, Garcia HG, Razo-Mejia M, Scholes C | Annual review of biophysics | 31084583 | Annu Rev Biophys | 2019 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/31084583 |
| Combinatorial Control through Allostery. | Galstyan V, Funk L, Einav T, Phillips R | The journal of physical chemistry. B | 30768906 | J Phys Chem B | 2019 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/30768906 |
| Schrödinger's What Is Life? at 75. | Phillips R | Cell systems | 34139159 | Cell Syst | 2021 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/34139159 |
| Theoretical analysis of inducer and operator binding for cyclic-AMP receptor protein mutants. | Einav T, Duque J, Phillips R | PloS one | 30256816 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30256816 |
| DNA sequence-dependent mechanics and protein-assisted bending in repressor-mediated loop formation. | Boedicker JQ, Garcia HG, Johnson S, Phillips R | Physical biology | 24231252 | Phys Biol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24231252 |
| The transcription factor titration effect dictates level of gene expression. | Brewster RC, Weinert FM, Garcia HG, Song D, Rydenfelt M, Phillips R | Cell | 24612990 | Cell | 2014 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/24612990 |
| Poly(dA:dT)-rich DNAs are highly flexible in the context of DNA looping. | Johnson S, Chen YJ, Phillips R | PloS one | 24146776 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24146776 |
| Protein fabrication automation. | Cox JC, Lape J, Sayed MA, Hellinga HW | Protein science : a publication of the Protein Society | 17242375 | Protein Sci | 2007 Mar | https://www.ncbi.nlm.nih.gov/pubmed/17242375 |
| Integration of cell-free protein coexpression with an enzyme-linked immunosorbent assay enables rapid analysis of protein-protein interactions directly from DNA. | Layton CJ, Hellinga HW | Protein science : a publication of the Protein Society | 21674663 | Protein Sci | 2011 Aug | https://www.ncbi.nlm.nih.gov/pubmed/21674663 |
| Thermodynamic analysis of ligand-induced changes in protein thermal unfolding applied to high-throughput determination of ligand affinities with extrinsic fluorescent dyes. | Layton CJ, Hellinga HW | Biochemistry | 21050007 | Biochemistry | 2010 Dec 28 | https://www.ncbi.nlm.nih.gov/pubmed/21050007 |
| Visualization of synaptic inhibition with an optogenetic sensor developed by cell-free protein engineering automation. | Grimley JS, Li L, Wang W, Wen L, Beese LS, Hellinga HW, Augustine GJ | The Journal of neuroscience : the official journal of the Society for Neuroscience | 24107961 | J Neurosci | 2013 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/24107961 |
| Structure-based design of robust glucose biosensors using a Thermotoga maritima periplasmic glucose-binding protein. | Tian Y, Cuneo MJ, Changela A, Höcker B, Beese LS, Hellinga HW | Protein science : a publication of the Protein Society | 17766373 | Protein Sci | 2007 Oct | https://www.ncbi.nlm.nih.gov/pubmed/17766373 |
| The crystal structure of a thermophilic glucose binding protein reveals adaptations that interconvert mono and di-saccharide binding sites. | Cuneo MJ, Changela A, Warren JJ, Beese LS, Hellinga HW | Journal of molecular biology | 16904687 | J Mol Biol | 2006 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/16904687 |
| Structural analysis of a periplasmic binding protein in the tripartite ATP-independent transporter family reveals a tetrameric assembly that may have a role in ligand transport. | Cuneo MJ, Changela A, Miklos AE, Beese LS, Krueger JK, Hellinga HW | The Journal of biological chemistry | 18723845 | J Biol Chem | 2008 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/18723845 |
| Picomole-scale characterization of protein stability and function by quantitative cysteine reactivity. | Isom DG, Vardy E, Oas TG, Hellinga HW | Proceedings of the National Academy of Sciences of the United States of America | 20194783 | Proc Natl Acad Sci U S A | 2010 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/20194783 |
| Local encoding of computationally designed enzyme activity. | Allert M, Dwyer MA, Hellinga HW | Journal of molecular biology | 17196220 | J Mol Biol | 2007 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/17196220 |
| Structural adaptations that modulate monosaccharide, disaccharide, and trisaccharide specificities in periplasmic maltose-binding proteins. | Cuneo MJ, Changela A, Beese LS, Hellinga HW | Journal of molecular biology | 19361522 | J Mol Biol | 2009 May 29 | https://www.ncbi.nlm.nih.gov/pubmed/19361522 |
| A miniaturized technique for assessing protein thermodynamics and function using fast determination of quantitative cysteine reactivity. | Isom DG, Marguet PR, Oas TG, Hellinga HW | Proteins | 21387407 | Proteins | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21387407 |
| Wharton's Jelly Mesenchymal Stromal Cells and Derived Extracellular Vesicles as Post-Myocardial Infarction Therapeutic Toolkit: An Experienced View. | Muñoz-Domínguez N, Roura S, Prat-Vidal C, Vives J | Pharmaceutics | 34575412 | Pharmaceutics | 2021 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/34575412 |
| Identification of cognate ligands for the Escherichia coli phnD protein product and engineering of a reagentless fluorescent biosensor for phosphonates. | Rizk SS, Cuneo MJ, Hellinga HW | Protein science : a publication of the Protein Society | 16751609 | Protein Sci | 2006 Jul | https://www.ncbi.nlm.nih.gov/pubmed/16751609 |
| Binding and signaling of surface-immobilized reagentless fluorescent biosensors derived from periplasmic binding proteins. | de Lorimier RM, Tian Y, Hellinga HW | Protein science : a publication of the Protein Society | 16823040 | Protein Sci | 2006 Aug | https://www.ncbi.nlm.nih.gov/pubmed/16823040 |
| Structural analysis of semi-specific oligosaccharide recognition by a cellulose-binding protein of thermotoga maritima reveals adaptations for functional diversification of the oligopeptide periplasmic binding protein fold. | Cuneo MJ, Beese LS, Hellinga HW | The Journal of biological chemistry | 19801540 | J Biol Chem | 2009 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/19801540 |
| Ligand-induced conformational changes in a thermophilic ribose-binding protein. | Cuneo MJ, Beese LS, Hellinga HW | BMC structural biology | 19019243 | BMC Struct Biol | 2008 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/19019243 |
| The backbone structure of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein is essentially identical to its mesophilic E. coli homolog. | Cuneo MJ, Tian Y, Allert M, Hellinga HW | BMC structural biology | 18373848 | BMC Struct Biol | 2008 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/18373848 |
| Multifactorial determinants of protein expression in prokaryotic open reading frames. | Allert M, Cox JC, Hellinga HW | Journal of molecular biology | 20727358 | J Mol Biol | 2010 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/20727358 |
| Gating multiple signals through detailed balance of excitation and inhibition in spiking networks. | Vogels TP, Abbott LF | Nature neuroscience | 19305402 | Nat Neurosci | 2009 Apr | https://www.ncbi.nlm.nih.gov/pubmed/19305402 |
| HCN hyperpolarization-activated cation channels inhibit EPSPs by interactions with M-type K(+) channels. | George MS, Abbott LF, Siegelbaum SA | Nature neuroscience | 19363490 | Nat Neurosci | 2009 May | https://www.ncbi.nlm.nih.gov/pubmed/19363490 |
| Stimulus-dependent suppression of chaos in recurrent neural networks. | Rajan K, Abbott LF, Sompolinsky H | Physical review. E, Statistical, nonlinear, and soft matter physics | 20866644 | Phys Rev E Stat Nonlin Soft Matter Phys | 2010 Jul | https://www.ncbi.nlm.nih.gov/pubmed/20866644 |
| Modular realignment of entorhinal grid cell activity as a basis for hippocampal remapping. | Monaco JD, Abbott LF | The Journal of neuroscience : the official journal of the Society for Neuroscience | 21697391 | J Neurosci | 2011 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/21697391 |
| Generating coherent patterns of activity from chaotic neural networks. | Sussillo D, Abbott LF | Neuron | 19709635 | Neuron | 2009 Aug 27 | https://www.ncbi.nlm.nih.gov/pubmed/19709635 |
| A brainstem map of orofacial rhythms. | Kaku H, Liu LD, Gao R, West S, Liao SM, Finkelstein A, Kleinfeld D, Thomas A, Tipparaju SL, Svoboda K, Li N | bioRxiv : the preprint server for biology | 39975015 | bioRxiv | 2025 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/39975015 |
| The realization of CRISPR gene therapy. | Ma Y, Qi LS | Nature chemical biology | 38872012 | Nat Chem Biol | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/38872012 |
| Programmable macromolecule delivery via engineered trogocytosis. | Chen X, Situ Y, Yang Y, Fu ML, Lyu L, Qi LS | bioRxiv : the preprint server for biology | 40161588 | bioRxiv | 2025 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/40161588 |
| High-resolution dynamic imaging of chromatin DNA communication using Oligo-LiveFISH. | Zhu Y, Balaji A, Han M, Andronov L, Roy AR, Wei Z, Chen C, Miles L, Cai S, Gu Z, Tse A, Yu BC, Uenaka T, Lin X, Spakowitz AJ, Moerner WE, Qi LS | Cell | 40239646 | Cell | 2025 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/40239646 |
| Precision epigenetic editing: Technological advances, enduring challenges, and therapeutic applications. | Roth GV, Gengaro IR, Qi LS | Cell chemical biology | 39137782 | Cell Chem Biol | 2024 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/39137782 |
| A frugal CRISPR kit for equitable and accessible education in gene editing and synthetic biology. | Collins M, Lau MB, Ma W, Shen A, Wang B, Cai S, La Russa M, Jewett MC, Qi LS | Nature communications | 39095367 | Nat Commun | 2024 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/39095367 |
| Precision Transcriptome Editing. | Chen C, Qi LS | ACS synthetic biology | 39435985 | ACS Synth Biol | 2024 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/39435985 |
| Cortical activity emerges in region-specific patterns during early brain development. | Suárez R, Bluett T, McCullough MH, Avitan L, Black DA, Paolino A, Fenlon LR, Goodhill GJ, Richards LJ | Proceedings of the National Academy of Sciences of the United States of America | 37216522 | Proc Natl Acad Sci U S A | 2023 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/37216522 |
| Cortical activity emerges in region-specific patterns during early brain development. | Suárez R, Bluett T, McCullough MH, Avitan L, Black DA, Paolino A, Fenlon LR, Goodhill GJ, Richards LJ | bioRxiv : the preprint server for biology | 36824827 | bioRxiv | 2023 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/36824827 |
| Diverse axonal morphologies of individual callosal projection neurons reveal new insights into brain connectivity. | Pal S, Lim JWC, Richards LJ | Current opinion in neurobiology | 38271848 | Curr Opin Neurobiol | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38271848 |
| Simulated diagnostic performance of low-field MRI: Harnessing open-access datasets to evaluate novel devices. | Arnold TC, Baldassano SN, Litt B, Stein JM | Magnetic resonance imaging | 34968700 | Magn Reson Imaging | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/34968700 |
| Addressing spatial bias in intracranial EEG functional connectivity analyses for epilepsy surgical planning. | Conrad EC, Bernabei JM, Sinha N, Ghosn NJ, Stein JM, Shinohara RT, Litt B | Journal of neural engineering | 36084621 | J Neural Eng | 2022 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/36084621 |
| Development of a natural language processing algorithm to extract seizure types and frequencies from the electronic health record. | Decker BM, Turco A, Xu J, Terman SW, Kosaraju N, Jamil A, Davis KA, Litt B, Ellis CA, Khankhanian P, Hill CE | Seizure | 35882104 | Seizure | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/35882104 |
| Implanting intracranial electrodes does not affect spikes or network connectivity in nearby or connected brain regions. | Conrad EC, Shinohara RT, Gugger JJ, Revell AY, Das S, Stein JM, Marsh ED, Davis KA, Litt B | Network neuroscience (Cambridge, Mass.) | 36607198 | Netw Neurosci | 2022 Jul | https://www.ncbi.nlm.nih.gov/pubmed/36607198 |
| Clinical signatures of genetic epilepsies precede diagnosis in electronic medical records of 32,000 individuals. | Galer PD, Parthasarathy S, Xian J, McKee JL, Ruggiero SM, Ganesan S, Kaufman MC, Cohen SR, Haag S, Chen C, Ojemann WKS, Kim D, Wilmarth O, Vaidiswaran P, Sederman C, Ellis CA, Gonzalez AK, Boßelmann CM, Lal D, Sederman R, Lewis-Smith D, Litt B, Helbig I | Genetics in medicine : official journal of the American College of Medical Genetics | 39011766 | Genet Med | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39011766 |
| Interictal intracranial EEG asymmetry lateralizes temporal lobe epilepsy. | Conrad EC, Lucas A, Ojemann WKS, Aguila CA, Mojena M, LaRocque JJ, Pattnaik AR, Gallagher R, Greenblatt A, Tranquille A, Parashos A, Gleichgerrcht E, Bonilha L, Litt B, Sinha S, Ungar L, Davis KA | medRxiv : the preprint server for health sciences | 38168158 | medRxiv | 2023 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/38168158 |
| Alcohol for seizure induction in the epilepsy monitoring unit. | Emmert BE, Xie K, Conrad EC, Ghosn NJ, Bauman K, Korzun J, Kulick-Soper CV, Naveed O, Hartmann N, LaRocque JJ, Mindy Ganguly T, Gugger JJ, Raghupathi R, Gelfand MA, Davis KA, Sinha SR, Litt B, Shinohara RT, Ellis CA | Epilepsy & behavior : E&B | 38070406 | Epilepsy Behav | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38070406 |
| Disparities in seizure outcomes revealed by large language models. | Xie K, Ojemann WKS, Gallagher RS, Lucas A, Hill CE, Hamilton RH, Johnson KB, Roth D, Litt B, Ellis CA | medRxiv : the preprint server for health sciences | 37790442 | medRxiv | 2023 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/37790442 |
| Quantifying interictal intracranial EEG to predict focal epilepsy. | Gallagher RS, Sinha N, Pattnaik AR, Ojemann WKS, Lucas A, LaRocque JJ, Bernabei JM, Greenblatt AS, Sweeney EM, Chen HI, Davis KA, Conrad EC, Litt B | ArXiv | 37547655 | ArXiv | 2023 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/37547655 |
| iEEG-recon: A Fast and Scalable Pipeline for Accurate Reconstruction of Intracranial Electrodes and Implantable Devices. | Lucas A, Scheid BH, Pattnaik AR, Gallagher R, Mojena M, Tranquille A, Prager B, Gleichgerrcht E, Gong R, Litt B, Davis KA, Das S, Stein JM, Sinha N | medRxiv : the preprint server for health sciences | 37398160 | medRxiv | 2023 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/37398160 |
| Low-field MRI: Clinical promise and challenges. | Arnold TC, Freeman CW, Litt B, Stein JM | Journal of magnetic resonance imaging : JMRI | 36120962 | J Magn Reson Imaging | 2023 Jan | https://www.ncbi.nlm.nih.gov/pubmed/36120962 |
| A pharmacokinetic model of antiseizure medication load to guide care in the epilepsy monitoring unit. | Ghosn NJ, Xie K, Pattnaik AR, Gugger JJ, Ellis CA, Sweeney E, Fox E, Bernabei JM, Johnson J, Boccanfuso J, Litt B, Conrad EC | Epilepsia | 36815252 | Epilepsia | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/36815252 |
| A Full-Stack Application for Detecting Seizures and Reducing Data During Continuous Electroencephalogram Monitoring. | Bernabei JM, Owoputi O, Small SD, Nyema NT, Dumenyo E, Kim J, Baldassano SN, Painter C, Conrad EC, Ganguly TM, Balu R, Davis KA, Levine JM, Pathmanathan J, Litt B | Critical care explorations | 34278312 | Crit Care Explor | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34278312 |
| Fractional-order model predictive control as a framework for electrical neurostimulation in epilepsy. | Chatterjee S, Romero O, Ashourvan A, Pequito S | Journal of neural engineering | 33142281 | J Neural Eng | 2020 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/33142281 |
| On-Demand Seizures Facilitate Rapid Screening of Therapeutics for Epilepsy. | Chen Y, Litt B, Vitale F, Takano H | bioRxiv : the preprint server for biology | 39464023 | bioRxiv | 2025 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/39464023 |
| Model-based design for seizure control by stimulation. | Ashourvan A, Pequito S, Khambhati AN, Mikhail F, Baldassano SN, Davis KA, Lucas TH, Vettel JM, Litt B, Pappas GJ, Bassett DS | Journal of neural engineering | 32103826 | J Neural Eng | 2020 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/32103826 |
| Artificial intelligence in epilepsy phenotyping. | Knight A, Gschwind T, Galer P, Worrell GA, Litt B, Soltesz I, Beniczky S | Epilepsia | 37983589 | Epilepsia | 2023 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/37983589 |
| Resting-state background features demonstrate multidien cycles in long-term EEG device recordings. | Ojemann WKS, Scheid BH, Mouchtaris S, Lucas A, LaRocque JJ, Aguila C, Ashourvan A, Caciagli L, Davis KA, Conrad EC, Litt B | medRxiv : the preprint server for health sciences | 37461688 | medRxiv | 2023 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/37461688 |
| Multi-contrast high-field quality image synthesis for portable low-field MRI using generative adversarial networks and paired data. | Lucas A, Campbell Arnold T, Okar SV, Vadali C, Kawatra KD, Ren Z, Cao Q, Shinohara RT, Schindler MK, Davis KA, Litt B, Reich DS, Stein JM | medRxiv : the preprint server for health sciences | 38234785 | medRxiv | 2023 Dec 29 | https://www.ncbi.nlm.nih.gov/pubmed/38234785 |
| iEEG-recon: A fast and scalable pipeline for accurate reconstruction of intracranial electrodes and implantable devices. | Lucas A, Scheid BH, Pattnaik AR, Gallagher R, Mojena M, Tranquille A, Prager B, Gleichgerrcht E, Gong R, Litt B, Davis KA, Das S, Stein JM, Sinha N | Epilepsia | 38148517 | Epilepsia | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38148517 |
| Time-evolving controllability of effective connectivity networks during seizure progression. | Scheid BH, Ashourvan A, Stiso J, Davis KA, Mikhail F, Pasqualetti F, Litt B, Bassett DS | Proceedings of the National Academy of Sciences of the United States of America | 33495341 | Proc Natl Acad Sci U S A | 2021 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/33495341 |
| Electrocorticography and stereo EEG provide distinct measures of brain connectivity: implications for network models. | Bernabei JM, Arnold TC, Shah P, Revell A, Ong IZ, Kini LG, Stein JM, Shinohara RT, Lucas TH, Davis KA, Bassett DS, Litt B | Brain communications | 34396112 | Brain Commun | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34396112 |
| Thalamic stereo-EEG in epilepsy surgery: where do we stand? | Bernabei JM, Litt B, Cajigas I | Brain : a journal of neurology | 37226526 | Brain | 2023 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/37226526 |
| The seizure severity score: a quantitative tool for comparing seizures and their response to therapy. | Pattnaik AR, Ghosn NJ, Ong IZ, Revell AY, Ojemann WKS, Scheid BH, Georgostathi G, Bernabei JM, Conrad EC, Sinha SR, Davis KA, Sinha N, Litt B | Journal of neural engineering | 37531949 | J Neural Eng | 2023 Aug 10 | https://www.ncbi.nlm.nih.gov/pubmed/37531949 |
| Long-term epilepsy outcome dynamics revealed by natural language processing of clinic notes. | Xie K, Gallagher RS, Shinohara RT, Xie SX, Hill CE, Conrad EC, Davis KA, Roth D, Litt B, Ellis CA | Epilepsia | 37114472 | Epilepsia | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37114472 |
| Characterizing the treatment gap in the United States among adult patients with a new diagnosis of epilepsy. | Decker BM, Ellis CA, Schriver E, Fischbein K, Smith D, Moyer JT, Kulick-Soper CV, Mowery D, Litt B, Hill CE | Epilepsia | 37150944 | Epilepsia | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37150944 |
| Spike patterns surrounding sleep and seizures localize the seizure-onset zone in focal epilepsy. | Conrad EC, Revell AY, Greenblatt AS, Gallagher RS, Pattnaik AR, Hartmann N, Gugger JJ, Shinohara RT, Litt B, Marsh ED, Davis KA | Epilepsia | 36484572 | Epilepsia | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36484572 |
| Quantitative approaches to guide epilepsy surgery from intracranial EEG. | Bernabei JM, Li A, Revell AY, Smith RJ, Gunnarsdottir KM, Ong IZ, Davis KA, Sinha N, Sarma S, Litt B | Brain : a journal of neurology | 36623936 | Brain | 2023 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/36623936 |
| Normative intracranial EEG maps epileptogenic tissues in focal epilepsy. | Bernabei JM, Sinha N, Arnold TC, Conrad E, Ong I, Pattnaik AR, Stein JM, Shinohara RT, Lucas TH, Bassett DS, Davis KA, Litt B | Brain : a journal of neurology | 35640886 | Brain | 2022 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/35640886 |
| Sensitivity of portable low-field magnetic resonance imaging for multiple sclerosis lesions. | Arnold TC, Tu D, Okar SV, Nair G, By S, Kawatra KD, Robert-Fitzgerald TE, Desiderio LM, Schindler MK, Shinohara RT, Reich DS, Stein JM | NeuroImage. Clinical | 35792417 | Neuroimage Clin | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35792417 |
| Seizure Detection in Continuous Inpatient EEG: A Comparison of Human vs Automated Review. | Ganguly TM, Ellis CA, Tu D, Shinohara RT, Davis KA, Litt B, Pathmanathan J | Neurology | 35410905 | Neurology | 2022 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/35410905 |
| Intracranial electroencephalographic biomarker predicts effective responsive neurostimulation for epilepsy prior to treatment. | Scheid BH, Bernabei JM, Khambhati AN, Mouchtaris S, Jeschke J, Bassett DS, Becker D, Davis KA, Lucas T, Doyle W, Chang EF, Friedman D, Rao VR, Litt B | Epilepsia | 34997577 | Epilepsia | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34997577 |
| A framework For brain atlases: Lessons from seizure dynamics. | Revell AY, Silva AB, Arnold TC, Stein JM, Das SR, Shinohara RT, Bassett DS, Litt B, Davis KA | NeuroImage | 35339683 | Neuroimage | 2022 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/35339683 |
| MXene-infused bioelectronic interfaces for multiscale electrophysiology and stimulation. | Driscoll N, Erickson B, Murphy BB, Richardson AG, Robbins G, Apollo NV, Mentzelopoulos G, Mathis T, Hantanasirisakul K, Bagga P, Gullbrand SE, Sergison M, Reddy R, Wolf JA, Chen HI, Lucas TH, Dillingham TR, Davis KA, Gogotsi Y, Medaglia JD, Vitale F | Science translational medicine | 34550728 | Sci Transl Med | 2021 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/34550728 |
| Extracting seizure frequency from epilepsy clinic notes: a machine reading approach to natural language processing. | Xie K, Gallagher RS, Conrad EC, Garrick CO, Baldassano SN, Bernabei JM, Galer PD, Ghosn NJ, Greenblatt AS, Jennings T, Kornspun A, Kulick-Soper CV, Panchal JM, Pattnaik AR, Scheid BH, Wei D, Weitzman M, Muthukrishnan R, Kim J, Litt B, Ellis CA, Roth D | Journal of the American Medical Informatics Association : JAMIA | 35190834 | J Am Med Inform Assoc | 2022 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/35190834 |
| Disparities in seizure outcomes revealed by large language models. | Xie K, Ojemann WKS, Gallagher RS, Shinohara RT, Lucas A, Hill CE, Hamilton RH, Johnson KB, Roth D, Litt B, Ellis CA | Journal of the American Medical Informatics Association : JAMIA | 38481027 | J Am Med Inform Assoc | 2024 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/38481027 |
| Generalization of finetuned transformer language models to new clinical contexts. | Xie K, Terman SW, Gallagher RS, Hill CE, Davis KA, Litt B, Roth D, Ellis CA | JAMIA open | 37600072 | JAMIA Open | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37600072 |
| Remote effects of temporal lobe epilepsy surgery: Long-term morphological changes after surgical resection. | Arnold TC, Kini LG, Bernabei JM, Revell AY, Das SR, Stein JM, Lucas TH, Englot DJ, Morgan VL, Litt B, Davis KA | Epilepsia open | 36944585 | Epilepsia Open | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/36944585 |
| Quantifying trial-by-trial variability during cortico-cortical evoked potential mapping of epileptogenic tissue. | Cornblath EJ, Lucas A, Armstrong C, Greenblatt AS, Stein JM, Hadar PN, Raghupathi R, Marsh E, Litt B, Davis KA, Conrad EC | Epilepsia | 36728906 | Epilepsia | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/36728906 |
| Utility of intracranial EEG networks depends on re-referencing and connectivity choice. | Shi H, Pattnaik AR, Aguila C, Lucas A, Sinha N, Prager B, Mojena M, Gallagher R, Parashos A, Bonilha L, Gleichgerrcht E, Davis KA, Litt B, Conrad EC | Brain communications | 38799618 | Brain Commun | 2024 | https://www.ncbi.nlm.nih.gov/pubmed/38799618 |
| Quantitative EEG Spectral Features Differentiate Genetic Epilepsies and Predict Neurologic Outcomes. | Galer PD, McKee JL, Ruggiero SM, Kaufman MC, McSalley I, Ganesan S, Ojemann WKS, Gonzalez AK, Cao Q, Litt B, Helbig I, Conrad EC | medRxiv : the preprint server for health sciences | 39417111 | medRxiv | 2024 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/39417111 |
| Mesial-to-lateral gradients of epileptiform activity to localize mesial temporal lobe epilepsy. | Aguila CA, Lucas A, Lavelle S, Pattnaik AR, Kim J, Ojemann WKS, Ma D, Josyula M, Petillo N, LaRocque JJ, Sinha SR, Ellis CA, Parashos A, Gleichgerrcht E, Davis KA, Litt B, Conrad EC | Epilepsia | 40387232 | Epilepsia | 2025 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/40387232 |
| Repeated hippocampal seizures lead to brain-wide reorganization of circuits and seizure propagation pathways. | Choy M, Dadgar-Kiani E, Cron GO, Duffy BA, Schmid F, Edelman BJ, Asaad M, Chan RW, Vahdat S, Lee JH | Neuron | 34706219 | Neuron | 2022 Jan 19 | https://www.ncbi.nlm.nih.gov/pubmed/34706219 |
| Distinct local and brain-wide networks are activated by optogenetic stimulation of neurons specific to each layer of motor cortex. | Chan RW, Cron GO, Asaad M, Edelman BJ, Lee HJ, Adesnik H, Feinberg D, Lee JH | NeuroImage | 36176220 | Neuroimage | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36176220 |
| In patients with late-life depression and cognitive decline, adding tDCS to cognitive training does not significantly affect depressive symptoms but shows potential benefits on cognition as measured by fMRI. | Ha J, Fang Y, Cron GO, Heo J, Jung E, Lee D, Kim H, Kim E, Park JY, Lee JH | Brain stimulation | 38367933 | Brain Stimul | 2024 Mar-Apr | https://www.ncbi.nlm.nih.gov/pubmed/38367933 |
| Quantitative 3D histochemistry reveals region-specific amyloid-β reduction by the antidiabetic drug netoglitazone. | Catto F, Kirschenbaum D, Economides AE, Reuss AM, Trevisan C, Caredio D, Dadgar-Kiani E, Mirzet D, Frick L, Weber-Stadlbauer U, Litvinov S, Koumoutsakos P, Lee JH, Aguzzi A | PloS one | 40327707 | PLoS One | 2025 | https://www.ncbi.nlm.nih.gov/pubmed/40327707 |
| Hemispherically lateralized rhythmic oscillations in the cingulate-amygdala circuit drive affective empathy in mice. | Kim SW, Kim M, Baek J, Latchoumane CF, Gangadharan G, Yoon Y, Kim DS, Lee JH, Shin HS | Neuron | 36460007 | Neuron | 2023 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/36460007 |
| Quantitative 3D histochemistry reveals region-specific amyloid-β reduction by the antidiabetic drug netoglitazone. | Catto F, Dadgar-Kiani E, Kirschenbaum D, Economides A, Reuss AM, Trevisan C, Caredio D, Mirzet D, Frick L, Weber-Stadlbauer U, Litvinov S, Koumoutsakos P, Hyung Lee J, Aguzzi A | bioRxiv : the preprint server for biology | 39185170 | bioRxiv | 2024 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/39185170 |
| Solving brain circuit function and dysfunction with computational modeling and optogenetic fMRI. | Lee JH, Liu Q, Dadgar-Kiani E | Science (New York, N.Y.) | 36327349 | Science | 2022 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/36327349 |
| High-sensitivity detection of optogenetically-induced neural activity with functional ultrasound imaging. | Edelman BJ, Ielacqua GD, Chan RW, Asaad M, Choy M, Lee JH | NeuroImage | 34333106 | Neuroimage | 2021 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/34333106 |
| Structural and developmental principles of neuropil assembly in C. elegans. | Moyle MW, Barnes KM, Kuchroo M, Gonopolskiy A, Duncan LH, Sengupta T, Shao L, Guo M, Santella A, Christensen R, Kumar A, Wu Y, Moon KR, Wolf G, Krishnaswamy S, Bao Z, Shroff H, Mohler WA, Colón-Ramos DA | Nature | 33627875 | Nature | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33627875 |
| Multiview confocal super-resolution microscopy. | Wu Y, Han X, Su Y, Glidewell M, Daniels JS, Liu J, Sengupta T, Rey-Suarez I, Fischer R, Patel A, Combs C, Sun J, Wu X, Christensen R, Smith C, Bao L, Sun Y, Duncan LH, Chen J, Pommier Y, Shi YB, Murphy E, Roy S, Upadhyaya A, Colón-Ramos D, La Riviere P, Shroff H | Nature | 34837071 | Nature | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34837071 |
| Programmed Cell Death Modifies Neural Circuits and Tunes Intrinsic Behavior. | Kochersberger A, Torkashvand MM, Lee D, Baskoylu S, Sengupta T, Koonce N, Emerson CE, Patel NV, Colón-Ramos D, Flavell S, Horvitz HR, Venkatachalam V, Hammarlund M | bioRxiv : the preprint server for biology | 37745399 | bioRxiv | 2023 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/37745399 |
| Specific configurations of electrical synapses filter sensory information to drive choices in behavior. | Almoril-Porras A, Calvo AC, Niu L, Beagan J, Hawk JD, Aljobeh A, Wisdom EM, Ren I, Díaz-García M, Wang ZW, Colón-Ramos DA | bioRxiv : the preprint server for biology | 37577611 | bioRxiv | 2023 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/37577611 |
| Deep learning-based aberration compensation improves contrast and resolution in fluorescence microscopy. | Guo M, Wu Y, Hobson CM, Su Y, Qian S, Krueger E, Christensen R, Kroeschell G, Bui J, Chaw M, Zhang L, Liu J, Hou X, Han X, Lu Z, Ma X, Zhovmer A, Combs C, Moyle M, Yemini E, Liu H, Liu Z, Benedetto A, La Riviere P, Colón-Ramos D, Shroff H | bioRxiv : the preprint server for biology | 37986950 | bioRxiv | 2024 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/37986950 |
| Local and dynamic regulation of neuronal glycolysis in vivo. | Wolfe AD, Koberstein JN, Smith CB, Stewart ML, Hammarlund M, Hyman A, Stork PJ, Goodman R, Colón-Ramos DA | bioRxiv : the preprint server for biology | 37662365 | bioRxiv | 2023 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/37662365 |
| Local and dynamic regulation of neuronal glycolysis in vivo. | Wolfe AD, Koberstein JN, Smith CB, Stewart ML, Gonzalez IJ, Hammarlund M, Hyman AA, Stork PJS, Goodman RH, Colón-Ramos DA | Proceedings of the National Academy of Sciences of the United States of America | 38198527 | Proc Natl Acad Sci U S A | 2024 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/38198527 |
| A muscle-epidermis-glia signaling axis sustains synaptic specificity during allometric growth in Caenorhabditis elegans. | Fan J, Ji T, Wang K, Huang J, Wang M, Manning L, Dong X, Shi Y, Zhang X, Shao Z, Colón-Ramos DA | eLife | 32255430 | Elife | 2020 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/32255430 |
| Transforming the development and dissemination of cutting-edge microscopy and computation. | Colón-Ramos DA, La Riviere P, Shroff H, Oldenbourg R | Nature methods | 31363203 | Nat Methods | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31363203 |
| Presynaptic autophagy is coupled to the synaptic vesicle cycle via ATG-9. | Yang S, Park D, Manning L, Hill SE, Cao M, Xuan Z, Gonzalez I, Dong Y, Clark B, Shao L, Okeke I, Almoril-Porras A, Bai J, De Camilli P, Colón-Ramos DA | Neuron | 35065714 | Neuron | 2022 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/35065714 |
| Configuration of electrical synapses filters sensory information to drive behavioral choices. | Almoril-Porras A, Calvo AC, Niu L, Beagan J, Díaz García M, Hawk JD, Aljobeh A, Wisdom EM, Ren I, Wang ZW, Colón-Ramos DA | Cell | 39742807 | Cell | 2025 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/39742807 |
| NeuroSC: Exploring Neurodevelopment via Spatiotemporal Collation of Anatomical Networks. | Koonce NL, Emerson SE, Bhaskar D, Kuchroo M, Moyle MW, Arroyo-Morales P, Martínez NV, Emerson JI, Krishnaswamy S, Mohler W, Colón-Ramos D | bioRxiv : the preprint server for biology | 39484462 | bioRxiv | 2025 May 27 | https://www.ncbi.nlm.nih.gov/pubmed/39484462 |
| Sleep Analysis in Adult C. elegans Reveals State-Dependent Alteration of Neural and Behavioral Responses. | Lawler DE, Chew YL, Hawk JD, Aljobeh A, Schafer WR, Albrecht DR | The Journal of neuroscience : the official journal of the Society for Neuroscience | 33446520 | J Neurosci | 2021 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/33446520 |
| A genetically encoded tool for reconstituting synthetic modulatory neurotransmission and reconnect neural circuits in vivo. | Hawk JD, Wisdom EM, Sengupta T, Kashlan ZD, Colón-Ramos DA | Nature communications | 34373460 | Nat Commun | 2021 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/34373460 |
| The active zone protein Clarinet regulates synaptic sorting of ATG-9 and presynaptic autophagy. | Xuan Z, Yang S, Clark B, Hill SE, Manning L, Colón-Ramos DA | PLoS biology | 37053235 | PLoS Biol | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/37053235 |
| Long-term editing of brain circuits in mice using an engineered electrical synapse. | Ransey E, Thomas GE, Wisdom E, Almoril-Porras A, Bowman R, Adamson E, Walder-Christensen KK, White JA, Hughes DN, Schwennesen H, Ferguson C, Tye KM, Mague SD, Niu L, Wang ZW, Colón-Ramos D, Hultman R, Bursac N, Dzirasa K | bioRxiv : the preprint server for biology | 40196531 | bioRxiv | 2025 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/40196531 |
| Transmembrane protein ATG-9 links presynaptic autophagy with the synaptic vesicle cycle. | Yang S, Colón-Ramos DA | Autophagy | 35349396 | Autophagy | 2022 Jul | https://www.ncbi.nlm.nih.gov/pubmed/35349396 |
| Differential adhesion regulates neurite placement via a retrograde zippering mechanism. | Sengupta T, Koonce NL, Vázquez-Martínez N, Moyle MW, Duncan LH, Emerson SE, Han X, Shao L, Wu Y, Santella A, Fan L, Bao Z, Mohler WA, Shroff H, Colón-Ramos DA | eLife | 34783657 | Elife | 2021 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/34783657 |
| Phosphofructokinase relocalizes into subcellular compartments with liquid-like properties in vivo. | Jang S, Xuan Z, Lagoy RC, Jawerth LM, Gonzalez IJ, Singh M, Prashad S, Kim HS, Patel A, Albrecht DR, Hyman AA, Colón-Ramos DA | Biophysical journal | 32853565 | Biophys J | 2021 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/32853565 |
| Antagonism between neuropeptides and monoamines in a distributed circuit for pathogen avoidance. | Marquina-Solis J, Feng L, Vandewyer E, Beets I, Hawk J, Colón-Ramos DA, Yu J, Fox BW, Schroeder FC, Bargmann CI | Cell reports | 38573858 | Cell Rep | 2024 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/38573858 |
| The active zone protein CLA-1 (Clarinet) bridges two subsynaptic domains to regulate presynaptic sorting of ATG-9. | Xuan Z, Colón-Ramos DA | Autophagy | 37389488 | Autophagy | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37389488 |
| Functional gene delivery to and across brain vasculature of systemic AAVs with endothelial-specific tropism in rodents and broad tropism in primates. | Chen X, Wolfe DA, Bindu DS, Zhang M, Taskin N, Goertsen D, Shay TF, Sullivan E, Huang SF, Kumar SR, Arokiaraj CM, Plattner V, Campos LJ, Mich J, Monet D, Ngo V, Ding X, Omstead V, Weed N, Bishaw Y, Gore B, Lein ES, Akrami A, Miller C, Levi BP, Keller A, Ting JT, Fox AS, Eroglu C, Gradinaru V | bioRxiv : the preprint server for biology | 36711773 | bioRxiv | 2023 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/36711773 |
| Functional gene delivery to and across brain vasculature of systemic AAVs with endothelial-specific tropism in rodents and broad tropism in primates. | Chen X, Wolfe DA, Bindu DS, Zhang M, Taskin N, Goertsen D, Shay TF, Sullivan EE, Huang SF, Ravindra Kumar S, Arokiaraj CM, Plattner VM, Campos LJ, Mich JK, Monet D, Ngo V, Ding X, Omstead V, Weed N, Bishaw Y, Gore BB, Lein ES, Akrami A, Miller C, Levi BP, Keller A, Ting JT, Fox AS, Eroglu C, Gradinaru V | Nature communications | 37291094 | Nat Commun | 2023 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/37291094 |
| Spatial transcriptomics for profiling the tropism of viral vectors in tissues. | Jang MJ, Coughlin GM, Jackson CR, Chen X, Chuapoco MR, Vendemiatti JL, Wang AZ, Gradinaru V | Nature biotechnology | 36702899 | Nat Biotechnol | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36702899 |
| Multiplexed Cre-dependent selection yields systemic AAVs for targeting distinct brain cell types. | Ravindra Kumar S, Miles TF, Chen X, Brown D, Dobreva T, Huang Q, Ding X, Luo Y, Einarsson PH, Greenbaum A, Jang MJ, Deverman BE, Gradinaru V | Nature methods | 32313222 | Nat Methods | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32313222 |
| Adeno-associated viral vectors for functional intravenous gene transfer throughout the non-human primate brain. | Chuapoco MR, Flytzanis NC, Goeden N, Christopher Octeau J, Roxas KM, Chan KY, Scherrer J, Winchester J, Blackburn RJ, Campos LJ, Man KNM, Sun J, Chen X, Lefevre A, Singh VP, Arokiaraj CM, Shay TF, Vendemiatti J, Jang MJ, Mich JK, Bishaw Y, Gore BB, Omstead V, Taskin N, Weed N, Levi BP, Ting JT, Miller CT, Deverman BE, Pickel J, Tian L, Fox AS, Gradinaru V | Nature nanotechnology | 37430038 | Nat Nanotechnol | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37430038 |
| Engineered AAVs for non-invasive gene delivery to rodent and non-human primate nervous systems. | Chen X, Ravindra Kumar S, Adams CD, Yang D, Wang T, Wolfe DA, Arokiaraj CM, Ngo V, Campos LJ, Griffiths JA, Ichiki T, Mazmanian SK, Osborne PB, Keast JR, Miller CT, Fox AS, Chiu IM, Gradinaru V | Neuron | 35643078 | Neuron | 2022 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/35643078 |
| Human cell surface-AAV interactomes identify LRP6 as blood-brain barrier transcytosis receptor and immune cytokine IL3 as AAV9 binder. | Shay TF, Jang S, Brittain TJ, Chen X, Walker B, Tebbutt C, Fan Y, Wolfe DA, Arokiaraj CM, Sullivan EE, Ding X, Wang TY, Lei Y, Chuapoco MR, Chou TF, Gradinaru V | Nature communications | 39245720 | Nat Commun | 2024 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/39245720 |
| Structural basis of liver de-targeting and neuronal tropism of CNS-targeted AAV capsids. | Brittain TJ, Jang S, Coughlin GM, Barcelona BH, Giriat I, Ristic F, Appling N, Chossis CP, Shay TF, Gradinaru V | bioRxiv : the preprint server for biology | 40501988 | bioRxiv | 2025 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/40501988 |
| Machine learning-guided channelrhodopsin engineering enables minimally invasive optogenetics. | Bedbrook CN, Yang KK, Robinson JE, Mackey ED, Gradinaru V, Arnold FH | Nature methods | 31611694 | Nat Methods | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31611694 |
| Primate-conserved carbonic anhydrase IV and murine-restricted LY6C1 enable blood-brain barrier crossing by engineered viral vectors. | Shay TF, Sullivan EE, Ding X, Chen X, Ravindra Kumar S, Goertsen D, Brown D, Crosby A, Vielmetter J, Borsos M, Wolfe DA, Lam AW, Gradinaru V | Science advances | 37075114 | Sci Adv | 2023 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/37075114 |
| NF1 mutation drives neuronal activity-dependent initiation of optic glioma. | Pan Y, Hysinger JD, Barron T, Schindler NF, Cobb O, Guo X, Yalçın B, Anastasaki C, Mulinyawe SB, Ponnuswami A, Scheaffer S, Ma Y, Chang KC, Xia X, Toonen JA, Lennon JJ, Gibson EM, Huguenard JR, Liau LM, Goldberg JL, Monje M, Gutmann DH | Nature | 34040258 | Nature | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34040258 |
| Maladaptive myelination promotes generalized epilepsy progression. | Knowles JK, Xu H, Soane C, Batra A, Saucedo T, Frost E, Tam LT, Fraga D, Ni L, Villar K, Talmi S, Huguenard JR, Monje M | Nature neuroscience | 35501379 | Nat Neurosci | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35501379 |
| Developmental origins and emerging therapeutic opportunities for childhood cancer. | Filbin M, Monje M | Nature medicine | 30842674 | Nat Med | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30842674 |
| The landscape of tumor cell states and spatial organization in H3-K27M mutant diffuse midline glioma across age and location. | Liu I, Jiang L, Samuelsson ER, Marco Salas S, Beck A, Hack OA, Jeong D, Shaw ML, Englinger B, LaBelle J, Mire HM, Madlener S, Mayr L, Quezada MA, Trissal M, Panditharatna E, Ernst KJ, Vogelzang J, Gatesman TA, Halbert ME, Palova H, Pokorna P, Sterba J, Slaby O, Geyeregger R, Diaz A, Findlay IJ, Dun MD, Resnick A, Suvà ML, Jones DTW, Agnihotri S, Svedlund J, Koschmann C, Haberler C, Czech T, Slavc I, Cotter JA, Ligon KL, Alexandrescu S, Yung WKA, Arrillaga-Romany I, Gojo J, Monje M, Nilsson M, Filbin MG | Nature genetics | 36471067 | Nat Genet | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36471067 |
| Glioblastoma remodelling of human neural circuits decreases survival. | Krishna S, Choudhury A, Keough MB, Seo K, Ni L, Kakaizada S, Lee A, Aabedi A, Popova G, Lipkin B, Cao C, Nava Gonzales C, Sudharshan R, Egladyous A, Almeida N, Zhang Y, Molinaro AM, Venkatesh HS, Daniel AGS, Shamardani K, Hyer J, Chang EF, Findlay A, Phillips JJ, Nagarajan S, Raleigh DR, Brang D, Monje M, Hervey-Jumper SL | Nature | 37138086 | Nature | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/37138086 |
| Haploinsufficiency of NFKBIA reshapes the epigenome antipodal to the IDH mutation and imparts disease fate in diffuse gliomas. | Bredel M, Espinosa L, Kim H, Scholtens DM, McElroy JP, Rajbhandari R, Meng W, Kollmeyer TM, Malta TM, Quezada MA, Harsh GR, Lobo-Jarne T, Solé L, Merati A, Nagaraja S, Nair S, White JJ, Thudi NK, Fleming JL, Webb A, Natsume A, Ogawa S, Weber RG, Bertran J, Haque SJ, Hentschel B, Miller CR, Furnari FB, Chan TA, Grosu AL, Weller M, Barnholtz-Sloan JS, Monje M, Noushmehr H, Jenkins RB, Rogers CL, MacDonald DR, Pugh SL, Chakravarti A | Cell reports. Medicine | 37343523 | Cell Rep Med | 2023 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/37343523 |
| Myelin plasticity in the ventral tegmental area is required for opioid reward. | Yalçın B, Pomrenze MB, Malacon K, Drexler R, Rogers AE, Shamardani K, Chau IJ, Taylor KR, Ni L, Contreras-Esquivel D, Malenka RC, Monje M | Nature | 38839962 | Nature | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38839962 |
| Immunotherapy-related cognitive impairment after CAR T cell therapy in mice. | Geraghty AC, Acosta-Alvarez L, Rotiroti MC, Dutton S, O'Dea MR, Kim W, Trivedi V, Mancusi R, Shamardani K, Malacon K, Woo PJ, Martinez-Velez N, Pham T, Reche-Ley NN, Otubu G, Castenada EH, Nwangwu K, Xu H, Mulinyawe SB, Zamler DB, Ni L, Cross K, Rustenhoven J, Kipnis J, Liddelow SA, Mackall CL, Majzner RG, Monje M | Cell | 40359942 | Cell | 2025 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/40359942 |
| Neuron-oligodendroglial interactions in health and malignant disease. | Taylor KR, Monje M | Nature reviews. Neuroscience | 37857838 | Nat Rev Neurosci | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37857838 |
| Glioma synapses recruit mechanisms of adaptive plasticity. | Taylor KR, Barron T, Hui A, Spitzer A, Yalçin B, Ivec AE, Geraghty AC, Hartmann GG, Arzt M, Gillespie SM, Kim YS, Maleki Jahan S, Zhang H, Shamardani K, Su M, Ni L, Du PP, Woo PJ, Silva-Torres A, Venkatesh HS, Mancusi R, Ponnuswami A, Mulinyawe S, Keough MB, Chau I, Aziz-Bose R, Tirosh I, Suvà ML, Monje M | Nature | 37914930 | Nature | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37914930 |
| The neuroscience of cancer. | Mancusi R, Monje M | Nature | 37316719 | Nature | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37316719 |
| Remote neuronal activity drives glioma progression through SEMA4F. | Huang-Hobbs E, Cheng YT, Ko Y, Luna-Figueroa E, Lozzi B, Taylor KR, McDonald M, He P, Chen HC, Yang Y, Maleki E, Lee ZF, Murali S, Williamson MR, Choi D, Curry R, Bayley J, Woo J, Jalali A, Monje M, Noebels JL, Harmanci AS, Rao G, Deneen B | Nature | 37380778 | Nature | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37380778 |
| A light-gated transcriptional recorder for detecting cell-cell contacts. | Cho KF, Gillespie SM, Kalogriopoulos NA, Quezada MA, Jacko M, Monje M, Ting AY | eLife | 35311648 | Elife | 2022 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/35311648 |
| Roadmap for the Emerging Field of Cancer Neuroscience. | Monje M, Borniger JC, D'Silva NJ, Deneen B, Dirks PB, Fattahi F, Frenette PS, Garzia L, Gutmann DH, Hanahan D, Hervey-Jumper SL, Hondermarck H, Hurov JB, Kepecs A, Knox SM, Lloyd AC, Magnon C, Saloman JL, Segal RA, Sloan EK, Sun X, Taylor MD, Tracey KJ, Trotman LC, Tuveson DA, Wang TC, White RA, Winkler F | Cell | 32302564 | Cell | 2020 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/32302564 |
| Remote neuronal activity drives glioma infiltration via Sema4f. | Huang-Hobbs E, Cheng YT, Ko Y, Luna-Figueroa E, Lozzi B, Taylor KR, McDonald M, He P, Chen HC, Yang Y, Maleki E, Lee ZF, Murali S, Williamson M, Choi D, Curry R, Bayley J, Woo J, Jalali A, Monje M, Noebels JL, Harmanci AS, Rao G, Deneen B | bioRxiv : the preprint server for biology | 36993539 | bioRxiv | 2023 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/36993539 |
| Cancer hallmarks intersect with neuroscience in the tumor microenvironment. | Hanahan D, Monje M | Cancer cell | 36917953 | Cancer Cell | 2023 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/36917953 |
| Neuron-Glial Interactions in Health and Brain Cancer. | Pan Y, Monje M | Advanced biology | 35957525 | Adv Biol (Weinh) | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35957525 |
| Neuronal hyperexcitability drives central and peripheral nervous system tumor progression in models of neurofibromatosis-1. | Anastasaki C, Mo J, Chen JK, Chatterjee J, Pan Y, Scheaffer SM, Cobb O, Monje M, Le LQ, Gutmann DH | Nature communications | 35589737 | Nat Commun | 2022 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/35589737 |
| Emerging mechanistic underpinnings and therapeutic targets for chemotherapy-related cognitive impairment. | Gibson EM, Monje M | Current opinion in oncology | 31449084 | Curr Opin Oncol | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31449084 |
| Activity Shapes Neural Circuit Form and Function: A Historical Perspective. | Pan Y, Monje M | The Journal of neuroscience : the official journal of the Society for Neuroscience | 31996470 | J Neurosci | 2020 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/31996470 |
| Diffuse Intrinsic Pontine Glioma: From Diagnosis to Next-Generation Clinical Trials. | Vitanza NA, Monje M | Current treatment options in neurology | 31290035 | Curr Treat Options Neurol | 2019 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/31290035 |
| GABAergic neuron-to-glioma synapses in diffuse midline gliomas. | Barron T, Yalçın B, Su M, Byun YG, Gavish A, Shamardani K, Xu H, Ni L, Soni N, Mehta V, Maleki Jahan S, Kim YS, Taylor KR, Keough MB, Quezada MA, Geraghty AC, Mancusi R, Vo LT, Castañeda EH, Woo PJ, Petritsch CK, Vogel H, Kaila K, Monje M | Nature | 39972132 | Nature | 2025 Mar | https://www.ncbi.nlm.nih.gov/pubmed/39972132 |
| The bright and the dark side of myelin plasticity: Neuron-glial interactions in health and disease. | Monje M, Káradóttir RT | Seminars in cell & developmental biology | 33293232 | Semin Cell Dev Biol | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/33293232 |
| Synaptic Communication in Brain Cancer. | Monje M | Cancer research | 32381657 | Cancer Res | 2020 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/32381657 |
| Loss of Adaptive Myelination Contributes to Methotrexate Chemotherapy-Related Cognitive Impairment. | Geraghty AC, Gibson EM, Ghanem RA, Greene JJ, Ocampo A, Goldstein AK, Ni L, Yang T, Marton RM, Paşca SP, Greenberg ME, Longo FM, Monje M | Neuron | 31122677 | Neuron | 2019 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/31122677 |
| Therapeutic strategies for diffuse midline glioma from high-throughput combination drug screening. | Lin GL, Wilson KM, Ceribelli M, Stanton BZ, Woo PJ, Kreimer S, Qin EY, Zhang X, Lennon J, Nagaraja S, Morris PJ, Quezada M, Gillespie SM, Duveau DY, Michalowski AM, Shinn P, Guha R, Ferrer M, Klumpp-Thomas C, Michael S, McKnight C, Minhas P, Itkin Z, Raabe EH, Chen L, Ghanem R, Geraghty AC, Ni L, Andreasson KI, Vitanza NA, Warren KE, Thomas CJ, Monje M | Science translational medicine | 31748226 | Sci Transl Med | 2019 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/31748226 |
| Histone Variant and Cell Context Determine H3K27M Reprogramming of the Enhancer Landscape and Oncogenic State. | Nagaraja S, Quezada MA, Gillespie SM, Arzt M, Lennon JJ, Woo PJ, Hovestadt V, Kambhampati M, Filbin MG, Suva ML, Nazarian J, Monje M | Molecular cell | 31588023 | Mol Cell | 2019 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/31588023 |
| Monosynaptic tracing maps brain-wide afferent oligodendrocyte precursor cell connectivity. | Mount CW, Yalçın B, Cunliffe-Koehler K, Sundaresh S, Monje M | eLife | 31625910 | Elife | 2019 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/31625910 |
| A prognostic neural epigenetic signature in high-grade glioma. | Drexler R, Khatri R, Sauvigny T, Mohme M, Maire CL, Ryba A, Zghaibeh Y, Dührsen L, Salviano-Silva A, Lamszus K, Westphal M, Gempt J, Wefers AK, Neumann JE, Bode H, Hausmann F, Huber TB, Bonn S, Jütten K, Delev D, Weber KJ, Harter PN, Onken J, Vajkoczy P, Capper D, Wiestler B, Weller M, Snijder B, Buck A, Weiss T, Göller PC, Sahm F, Menstel JA, Zimmer DN, Keough MB, Ni L, Monje M, Silverbush D, Hovestadt V, Suvà ML, Krishna S, Hervey-Jumper SL, Schüller U, Heiland DH, Hänzelmann S, Ricklefs FL | Nature medicine | 38760585 | Nat Med | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38760585 |
| Immunotherapy-related cognitive impairment after CAR T cell therapy in mice. | Geraghty AC, Acosta-Alvarez L, Rotiroti M, Dutton S, O'Dea MR, Woo PJ, Xu H, Shamardani K, Mancusi R, Ni L, Mulinyawe SB, Kim WJ, Liddelow SA, Majzner RG, Monje M | bioRxiv : the preprint server for biology | 38798554 | bioRxiv | 2024 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/38798554 |
| Nf1 mutation disrupts activity-dependent oligodendroglial plasticity and motor learning in mice. | Pan Y, Hysinger JD, Yalçın B, Lennon JJ, Byun YG, Raghavan P, Schindler NF, Anastasaki C, Chatterjee J, Ni L, Xu H, Malacon K, Jahan SM, Ivec AE, Aghoghovwia BE, Mount CW, Nagaraja S, Scheaffer S, Attardi LD, Gutmann DH, Monje M | Nature neuroscience | 38816530 | Nat Neurosci | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38816530 |
| Microglia in Cancer Therapy-Related Cognitive Impairment. | Gibson EM, Monje M | Trends in neurosciences | 33674135 | Trends Neurosci | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33674135 |
| Neural Signaling in Cancer. | Keough MB, Monje M | Annual review of neuroscience | 35259916 | Annu Rev Neurosci | 2022 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/35259916 |
| Mild respiratory SARS-CoV-2 infection can cause multi-lineage cellular dysregulation and myelin loss in the brain. | Fernández-Castañeda A, Lu P, Geraghty AC, Song E, Lee MH, Wood J, Yalçın B, Taylor KR, Dutton S, Acosta-Alvarez L, Ni L, Contreras-Esquivel D, Gehlhausen JR, Klein J, Lucas C, Mao T, Silva J, Peña-Hernández MA, Tabachnikova A, Takahashi T, Tabacof L, Tosto-Mancuso J, Breyman E, Kontorovich A, McCarthy D, Quezado M, Hefti M, Perl D, Folkerth R, Putrino D, Nath A, Iwasaki A, Monje M | bioRxiv : the preprint server for biology | 35043113 | bioRxiv | 2022 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/35043113 |
| Microenvironmental interactions of oligodendroglial cells. | Yalçın B, Monje M | Developmental cell | 34192527 | Dev Cell | 2021 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/34192527 |
| Mild respiratory COVID can cause multi-lineage neural cell and myelin dysregulation. | Fernández-Castañeda A, Lu P, Geraghty AC, Song E, Lee MH, Wood J, O'Dea MR, Dutton S, Shamardani K, Nwangwu K, Mancusi R, Yalçın B, Taylor KR, Acosta-Alvarez L, Malacon K, Keough MB, Ni L, Woo PJ, Contreras-Esquivel D, Toland AMS, Gehlhausen JR, Klein J, Takahashi T, Silva J, Israelow B, Lucas C, Mao T, Peña-Hernández MA, Tabachnikova A, Homer RJ, Tabacof L, Tosto-Mancuso J, Breyman E, Kontorovich A, McCarthy D, Quezado M, Vogel H, Hefti MM, Perl DP, Liddelow S, Folkerth R, Putrino D, Nath A, Iwasaki A, Monje M | Cell | 35768006 | Cell | 2022 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/35768006 |
| The neurobiology of long COVID. | Monje M, Iwasaki A | Neuron | 36288726 | Neuron | 2022 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/36288726 |
| Cholinergic Neuronal Activity Promotes Diffuse Midline Glioma Growth through Muscarinic Signaling. | Drexler R, Drinnenberg A, Gavish A, Yalcin B, Shamardani K, Rogers A, Mancusi R, Taylor KR, Kim YS, Woo PJ, Ravel A, Tatlock E, Ramakrishnan C, Ayala-Sarmiento AE, Pacheco DRF, Siverts L, Daigle TL, Tasic B, Zeng H, Breunig JJ, Deisseroth K, Monje M | bioRxiv : the preprint server for biology | 39386427 | bioRxiv | 2024 Sep 24 | https://www.ncbi.nlm.nih.gov/pubmed/39386427 |
| Transition to a mesenchymal state in neuroblastoma confers resistance to anti-GD2 antibody via reduced expression of ST8SIA1. | Mabe NW, Huang M, Dalton GN, Alexe G, Schaefer DA, Geraghty AC, Robichaud AL, Conway AS, Khalid D, Mader MM, Belk JA, Ross KN, Sheffer M, Linde MH, Ly N, Yao W, Rotiroti MC, Smith BAH, Wernig M, Bertozzi CR, Monje M, Mitsiades CS, Majeti R, Satpathy AT, Stegmaier K, Majzner RG | Nature cancer | 35817829 | Nat Cancer | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35817829 |
| GD2-CAR T cell therapy for H3K27M-mutated diffuse midline gliomas. | Majzner RG, Ramakrishna S, Yeom KW, Patel S, Chinnasamy H, Schultz LM, Richards RM, Jiang L, Barsan V, Mancusi R, Geraghty AC, Good Z, Mochizuki AY, Gillespie SM, Toland AMS, Mahdi J, Reschke A, Nie EH, Chau IJ, Rotiroti MC, Mount CW, Baggott C, Mavroukakis S, Egeler E, Moon J, Erickson C, Green S, Kunicki M, Fujimoto M, Ehlinger Z, Reynolds W, Kurra S, Warren KE, Prabhu S, Vogel H, Rasmussen L, Cornell TT, Partap S, Fisher PG, Campen CJ, Filbin MG, Grant G, Sahaf B, Davis KL, Feldman SA, Mackall CL, Monje M | Nature | 35130560 | Nature | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35130560 |
| Diffuse intrinsic pontine glioma: molecular landscape and emerging therapeutic targets. | Aziz-Bose R, Monje M | Current opinion in oncology | 31464759 | Curr Opin Oncol | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31464759 |
| Electrical and synaptic integration of glioma into neural circuits. | Venkatesh HS, Morishita W, Geraghty AC, Silverbush D, Gillespie SM, Arzt M, Tam LT, Espenel C, Ponnuswami A, Ni L, Woo PJ, Taylor KR, Agarwal A, Regev A, Brang D, Vogel H, Hervey-Jumper S, Bergles DE, Suvà ML, Malenka RC, Monje M | Nature | 31534222 | Nature | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31534222 |
| Tumor inflammation-associated neurotoxicity. | Mahdi J, Dietrich J, Straathof K, Roddie C, Scott BJ, Davidson TB, Prolo LM, Batchelor TT, Campen CJ, Davis KL, Gust J, Lim M, Majzner RG, Park JR, Partap S, Ramakrishna S, Richards R, Schultz L, Vitanza NA, Wang LD, Mackall CL, Monje M | Nature medicine | 37024595 | Nat Med | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/37024595 |
| Cancer neuroscience: State of the field, emerging directions. | Winkler F, Venkatesh HS, Amit M, Batchelor T, Demir IE, Deneen B, Gutmann DH, Hervey-Jumper S, Kuner T, Mabbott D, Platten M, Rolls A, Sloan EK, Wang TC, Wick W, Venkataramani V, Monje M | Cell | 37059069 | Cell | 2023 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/37059069 |
| Epigenetic neural glioblastoma enhances synaptic integration and predicts therapeutic vulnerability. | Drexler R, Khatri R, Sauvigny T, Mohme M, Maire CL, Ryba A, Zghaibeh Y, Dührsen L, Salviano-Silva A, Lamszus K, Westphal M, Gempt J, Wefers AK, Neumann J, Bode H, Hausmann F, Huber TB, Bonn S, Jütten K, Delev D, Weber KJ, Harter PN, Onken J, Vajkoczy P, Capper D, Wiestler B, Weller M, Snijder B, Buck A, Weiss T, Keough MB, Ni L, Monje M, Silverbush D, Hovestadt V, Suvà ML, Krishna S, Hervey-Jumper SL, Schüller U, Heiland DH, Hänzelmann S, Ricklefs FL | bioRxiv : the preprint server for biology | 37609137 | bioRxiv | 2023 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/37609137 |
| Neuronal subtype-specific growth cone and soma purification from mammalian CNS via fractionation and fluorescent sorting for subcellular analyses and spatial mapping of local transcriptomes and proteomes. | Engmann AK, Hatch JJ, Nanda P, Veeraraghavan P, Ozkan A, Poulopoulos A, Murphy AJ, Macklis JD | Nature protocols | 35022617 | Nat Protoc | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35022617 |
| Crim1 and Kelch-like 14 exert complementary dual-directional developmental control over segmentally specific corticospinal axon projection targeting. | Sahni V, Itoh Y, Shnider SJ, Macklis JD | Cell reports | 34686337 | Cell Rep | 2021 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/34686337 |
| Cbln1 Directs Axon Targeting by Corticospinal Neurons Specifically toward Thoraco-Lumbar Spinal Cord. | Song JHT, Ruven C, Patel P, Ding F, Macklis JD, Sahni V | The Journal of neuroscience : the official journal of the Society for Neuroscience | 36823038 | J Neurosci | 2023 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/36823038 |
| Development of nanoRibo-seq enables study of regulated translation by cortical neuron subtypes, showing uORF translation in synaptic-axonal genes. | Froberg JE, Durak O, Macklis JD | Cell reports | 37624698 | Cell Rep | 2023 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/37624698 |
| Subcellular transcriptomes and proteomes of developing axon projections in the cerebral cortex. | Poulopoulos A, Murphy AJ, Ozkan A, Davis P, Hatch J, Kirchner R, Macklis JD | Nature | 30626971 | Nature | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30626971 |
| Inter-axonal molecular crosstalk via Lumican proteoglycan sculpts murine cervical corticospinal innervation by distinct subpopulations. | Itoh Y, Sahni V, Shnider SJ, McKee H, Macklis JD | Cell reports | 36934325 | Cell Rep | 2023 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/36934325 |
| Symmetry in levels of axon-axon homophilic adhesion establishes topography in the corpus callosum and development of connectivity between brain hemispheres. | Poulopoulos A, Davis P, Brandenburg C, Itoh Y, Galazo MJ, Greig LC, Romanowski AJ, Budnik B, Macklis JD | bioRxiv : the preprint server for biology | 38585721 | bioRxiv | 2024 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/38585721 |
| BEAM: A combinatorial recombinase toolbox for binary gene expression and mosaic genetic analysis. | Greig LC, Woodworth MB, Poulopoulos A, Lim S, Macklis JD | Cell reports | 39159043 | Cell Rep | 2024 Aug 27 | https://www.ncbi.nlm.nih.gov/pubmed/39159043 |
| Directed differentiation of functional corticospinal-like neurons from endogenous SOX6+/NG2+ cortical progenitors. | Ozkan A, Padmanabhan HK, Shipman SL, Azim E, Kumar P, Sadegh C, Basak AN, Macklis JD | bioRxiv : the preprint server for biology | 38712174 | bioRxiv | 2025 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/38712174 |
| An evolutionarily acquired microRNA shapes development of mammalian cortical projections. | Diaz JL, Siththanandan VB, Lu V, Gonzalez-Nava N, Pasquina L, MacDonald JL, Woodworth MB, Ozkan A, Nair R, He Z, Sahni V, Sarnow P, Palmer TD, Macklis JD, Tharin S | Proceedings of the National Academy of Sciences of the United States of America | 33139574 | Proc Natl Acad Sci U S A | 2020 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/33139574 |
| Limitations of fluorescent timer protein maturation kinetics to isolate transcriptionally synchronized human neural progenitor cells. | Peter M, Shipman S, Heo J, Macklis JD | iScience | 38784012 | iScience | 2024 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/38784012 |
| Corticospinal neuron subpopulation-specific developmental genes prospectively indicate mature segmentally specific axon projection targeting. | Sahni V, Shnider SJ, Jabaudon D, Song JHT, Itoh Y, Greig LC, Macklis JD | Cell reports | 34686320 | Cell Rep | 2021 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/34686320 |
| Limitations of fluorescent timer protein maturation kinetics to isolate transcriptionally synchronized cortically differentiating human pluripotent stem cells. | Peter M, Shipman S, Macklis JD | bioRxiv : the preprint server for biology | 37609140 | bioRxiv | 2023 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/37609140 |
| Cortical projection neurons with distinct axonal connectivity employ ribosomal complexes with distinct protein compositions. | Tran TP, Budnik B, Froberg JE, Macklis JD | bioRxiv : the preprint server for biology | 39763931 | bioRxiv | 2025 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/39763931 |
| Tle4 controls both developmental acquisition and early post-natal maturation of corticothalamic projection neuron identity. | Galazo MJ, Sweetser DA, Macklis JD | Cell reports | 37561632 | Cell Rep | 2023 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/37561632 |
| Dynamic subtype- and context-specific subcellular RNA regulation in growth cones of developing neurons of the cerebral cortex. | Veeraraghavan P, Engmann AK, Hatch JJ, Itoh Y, Nguyen D, Addison T, Macklis JD | bioRxiv : the preprint server for biology | 38328182 | bioRxiv | 2024 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/38328182 |
| Developing a Bright NIR-II Fluorophore with Fast Renal Excretion and Its Application in Molecular Imaging of Immune Checkpoint PD-L1. | Wan H, Ma H, Zhu S, Wang F, Tian Y, Ma R, Yang Q, Hu Z, Zhu T, Wang W, Ma Z, Zhang M, Zhong Y, Sun H, Liang Y, Dai H | Advanced functional materials | 31832053 | Adv Funct Mater | 2018 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/31832053 |
| A high quantum yield molecule-protein complex fluorophore for near-infrared II imaging. | Antaris AL, Chen H, Diao S, Ma Z, Zhang Z, Zhu S, Wang J, Lozano AX, Fan Q, Chew L, Zhu M, Cheng K, Hong X, Dai H, Cheng Z | Nature communications | 28524850 | Nat Commun | 2017 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/28524850 |
| In vivo molecular imaging for immunotherapy using ultra-bright near-infrared-IIb rare-earth nanoparticles. | Zhong Y, Ma Z, Wang F, Wang X, Yang Y, Liu Y, Zhao X, Li J, Du H, Zhang M, Cui Q, Zhu S, Sun Q, Wan H, Tian Y, Liu Q, Wang W, Garcia KC, Dai H | Nature biotechnology | 31570897 | Nat Biotechnol | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31570897 |
| Near-Infrared IIb Fluorescence Imaging of Vascular Regeneration with Dynamic Tissue Perfusion Measurement and High Spatial Resolution. | Ma Z, Zhang M, Yue J, Alcazar C, Zhong Y, Doyle TC, Dai H, Huang NF | Advanced functional materials | 31327961 | Adv Funct Mater | 2018 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/31327961 |
| Light-sheet microscopy in the near-infrared II window. | Wang F, Wan H, Ma Z, Zhong Y, Sun Q, Tian Y, Qu L, Du H, Zhang M, Li L, Ma H, Luo J, Liang Y, Li WJ, Hong G, Liu L, Dai H | Nature methods | 31086342 | Nat Methods | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31086342 |
| Shortwave-infrared-light-emitting probes for the in vivo tracking of cancer vaccines and the elicited immune responses. | Ren F, Wang F, Baghdasaryan A, Li Y, Liu H, Hsu R, Wang C, Li J, Zhong Y, Salazar F, Xu C, Jiang Y, Ma Z, Zhu G, Zhao X, Wong KK, Willis R, Christopher Garcia K, Wu A, Mellins E, Dai H | Nature biomedical engineering | 37620621 | Nat Biomed Eng | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37620621 |
| Bright quantum dots emitting at ∼1,600 nm in the NIR-IIb window for deep tissue fluorescence imaging. | Zhang M, Yue J, Cui R, Ma Z, Wan H, Wang F, Zhu S, Zhou Y, Kuang Y, Zhong Y, Pang DW, Dai H | Proceedings of the National Academy of Sciences of the United States of America | 29891702 | Proc Natl Acad Sci U S A | 2018 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/29891702 |
| Molecular imaging in the second near-infrared window. | Wan H, Du H, Wang F, Dai H | Advanced functional materials | 31885529 | Adv Funct Mater | 2019 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/31885529 |
| Phosphorylcholine-conjugated gold-molecular clusters improve signal for Lymph Node NIR-II fluorescence imaging in preclinical cancer models. | Baghdasaryan A, Wang F, Ren F, Ma Z, Li J, Zhou X, Grigoryan L, Xu C, Dai H | Nature communications | 36153336 | Nat Commun | 2022 Sep 24 | https://www.ncbi.nlm.nih.gov/pubmed/36153336 |
| In vivo NIR-II structured-illumination light-sheet microscopy. | Wang F, Ma Z, Zhong Y, Salazar F, Xu C, Ren F, Qu L, Wu AM, Dai H | Proceedings of the National Academy of Sciences of the United States of America | 33526701 | Proc Natl Acad Sci U S A | 2021 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/33526701 |
| Boosting the down-shifting luminescence of rare-earth nanocrystals for biological imaging beyond 1500 nm. | Zhong Y, Ma Z, Zhu S, Yue J, Zhang M, Antaris AL, Yuan J, Cui R, Wan H, Zhou Y, Wang W, Huang NF, Luo J, Hu Z, Dai H | Nature communications | 28963467 | Nat Commun | 2017 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/28963467 |
| 3D NIR-II Molecular Imaging Distinguishes Targeted Organs with High-Performance NIR-II Bioconjugates. | Zhu S, Herraiz S, Yue J, Zhang M, Wan H, Yang Q, Ma Z, Wang Y, He J, Antaris AL, Zhong Y, Diao S, Feng Y, Zhou Y, Yu K, Hong G, Liang Y, Hsueh AJ, Dai H | Advanced materials (Deerfield Beach, Fla.) | 29446156 | Adv Mater | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29446156 |
| Rational Design of Molecular Fluorophores for Biological Imaging in the NIR-II Window. | Yang Q, Ma Z, Wang H, Zhou B, Zhu S, Zhong Y, Wang J, Wan H, Antaris A, Ma R, Zhang X, Yang J, Zhang X, Sun H, Liu W, Liang Y, Dai H | Advanced materials (Deerfield Beach, Fla.) | 28117499 | Adv Mater | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28117499 |
| Molecular Cancer Imaging in the Second Near-Infrared Window Using a Renal-Excreted NIR-II Fluorophore-Peptide Probe. | Wang W, Ma Z, Zhu S, Wan H, Yue J, Ma H, Ma R, Yang Q, Wang Z, Li Q, Qian Y, Yue C, Wang Y, Fan L, Zhong Y, Zhou Y, Gao H, Ruan J, Hu Z, Liang Y, Dai H | Advanced materials (Deerfield Beach, Fla.) | 29682821 | Adv Mater | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29682821 |
| Live imaging of follicle stimulating hormone receptors in gonads and bones using near infrared II fluorophore. | Feng Y, Zhu S, Antaris AL, Chen H, Xiao Y, Lu X, Jiang L, Diao S, Yu K, Wang Y, Herraiz S, Yue J, Hong X, Hong G, Cheng Z, Dai H, Hsueh AJ | Chemical science | 28626555 | Chem Sci | 2017 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/28626555 |
| A theranostic agent for cancer therapy and imaging in the second near-infrared window. | Ma Z, Wan H, Wang W, Zhang X, Uno T, Yang Q, Yue J, Gao H, Zhong Y, Tian Y, Sun Q, Liang Y, Dai H | Nano research | 31832124 | Nano Res | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31832124 |
| Near-Infrared-II Molecular Dyes for Cancer Imaging and Surgery. | Zhu S, Tian R, Antaris AL, Chen X, Dai H | Advanced materials (Deerfield Beach, Fla.) | 31025403 | Adv Mater | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31025403 |
| Intratumor injected gold molecular clusters for NIR-II imaging and cancer therapy. | Baghdasaryan A, Liu H, Ren F, Hsu R, Jiang Y, Wang F, Zhang M, Grigoryan L, Dai H | Proceedings of the National Academy of Sciences of the United States of America | 38261618 | Proc Natl Acad Sci U S A | 2024 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/38261618 |
| A SARS-CoV-2 vaccine on an NIR-II/SWIR emitting nanoparticle platform. | Jiang Y, Sanyal M, Hussein NA, Baghdasaryan A, Zhang M, Wang F, Ren F, Li J, Zhu G, Meng Y, Adamska JZ, Mellins E, Dai H | Science advances | 39919189 | Sci Adv | 2025 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/39919189 |
| Cross-Link-Functionalized Nanoparticles for Rapid Excretion in Nanotheranostic Applications. | Ma Z, Wang F, Zhong Y, Salazar F, Li J, Zhang M, Ren F, Wu AM, Dai H | Angewandte Chemie (Weinheim an der Bergstrasse, Germany) | 34334834 | Angew Chem Weinheim Bergstr Ger | 2020 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/34334834 |
| A mini-review on rare-earth down-conversion nanoparticles for NIR-II imaging of biological systems. | Zhong Y, Dai H | Nano research | 34336144 | Nano Res | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/34336144 |
| In vivo non-invasive confocal fluorescence imaging beyond 1,700 nm using superconducting nanowire single-photon detectors. | Wang F, Ren F, Ma Z, Qu L, Gourgues R, Xu C, Baghdasaryan A, Li J, Zadeh IE, Los JWN, Fognini A, Qin-Dregely J, Dai H | Nature nanotechnology | 35606441 | Nat Nanotechnol | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35606441 |
| High-precision tumor resection down to few-cell level guided by NIR-IIb molecular fluorescence imaging. | Wang F, Qu L, Ren F, Baghdasaryan A, Jiang Y, Hsu R, Liang P, Li J, Zhu G, Ma Z, Dai H | Proceedings of the National Academy of Sciences of the United States of America | 35380898 | Proc Natl Acad Sci U S A | 2022 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/35380898 |
| A bright organic NIR-II nanofluorophore for three-dimensional imaging into biological tissues. | Wan H, Yue J, Zhu S, Uno T, Zhang X, Yang Q, Yu K, Hong G, Wang J, Li L, Ma Z, Gao H, Zhong Y, Su J, Antaris AL, Xia Y, Luo J, Liang Y, Dai H | Nature communications | 29563581 | Nat Commun | 2018 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/29563581 |
| Deep learning for in vivo near-infrared imaging. | Ma Z, Wang F, Wang W, Zhong Y, Dai H | Proceedings of the National Academy of Sciences of the United States of America | 33372162 | Proc Natl Acad Sci U S A | 2021 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/33372162 |
| Molecular Gold Nanoclusters for Advanced NIR-II Bioimaging and Therapy. | Baghdasaryan A, Dai H | Chemical reviews | 40435324 | Chem Rev | 2025 Jun 11 | https://www.ncbi.nlm.nih.gov/pubmed/40435324 |
| Small molecule alteration of RNA sequence in cells and animals. | Guan L, Luo Y, Ja WW, Disney MD | Bioorganic & medicinal chemistry letters | 29079470 | Bioorg Med Chem Lett | 2018 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/29079470 |
| Target-Directed Approaches for Screening Small Molecules against RNA Targets. | Haniff HS, Knerr L, Chen JL, Disney MD, Lightfoot HL | SLAS discovery : advancing life sciences R & D | 32419578 | SLAS Discov | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32419578 |
| Structure-Specific Cleavage of an RNA Repeat Expansion with a Dimeric Small Molecule Is Advantageous over Sequence-Specific Recognition by an Oligonucleotide. | Benhamou RI, Angelbello AJ, Andrews RJ, Wang ET, Moss WN, Disney MD | ACS chemical biology | 31927948 | ACS Chem Biol | 2020 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/31927948 |
| How We Think about Targeting RNA with Small Molecules. | Costales MG, Childs-Disney JL, Haniff HS, Disney MD | Journal of medicinal chemistry | 32212706 | J Med Chem | 2020 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/32212706 |
| Precise small-molecule recognition of a toxic CUG RNA repeat expansion. | Rzuczek SG, Colgan LA, Nakai Y, Cameron MD, Furling D, Yasuda R, Disney MD | Nature chemical biology | 27941760 | Nat Chem Biol | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27941760 |
| Targeted Degradation of a Hypoxia-Associated Non-coding RNA Enhances the Selectivity of a Small Molecule Interacting with RNA. | Costales MG, Suresh B, Vishnu K, Disney MD | Cell chemical biology | 31130520 | Cell Chem Biol | 2019 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/31130520 |
| Decreasing the intrinsically disordered protein α-synuclein levels by targeting its structured mRNA with a ribonuclease-targeting chimera. | Tong Y, Zhang P, Yang X, Liu X, Zhang J, Grudniewska M, Jung I, Abegg D, Liu J, Childs-Disney JL, Gibaut QMR, Haniff HS, Adibekian A, Mouradian MM, Disney MD | Proceedings of the National Academy of Sciences of the United States of America | 38181056 | Proc Natl Acad Sci U S A | 2024 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/38181056 |
| Studying a Drug-like, RNA-Focused Small Molecule Library Identifies Compounds That Inhibit RNA Toxicity in Myotonic Dystrophy. | Rzuczek SG, Southern MR, Disney MD | ACS chemical biology | 26414664 | ACS Chem Biol | 2015 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/26414664 |
| Small Molecule Recognition and Tools to Study Modulation of r(CGG)(exp) in Fragile X-Associated Tremor Ataxia Syndrome. | Yang WY, He F, Strack RL, Oh SY, Frazer M, Jaffrey SR, Todd PK, Disney MD | ACS chemical biology | 27276216 | ACS Chem Biol | 2016 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/27276216 |
| Small-molecule targeted recruitment of a nuclease to cleave an oncogenic RNA in a mouse model of metastatic cancer. | Costales MG, Aikawa H, Li Y, Childs-Disney JL, Abegg D, Hoch DG, Pradeep Velagapudi S, Nakai Y, Khan T, Wang KW, Yildirim I, Adibekian A, Wang ET, Disney MD | Proceedings of the National Academy of Sciences of the United States of America | 31964809 | Proc Natl Acad Sci U S A | 2020 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/31964809 |
| Methods to identify and optimize small molecules interacting with RNA (SMIRNAs). | Ursu A, Vézina-Dawod S, Disney MD | Drug discovery today | 31356880 | Drug Discov Today | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31356880 |
| Targeting RNA with Small Molecules To Capture Opportunities at the Intersection of Chemistry, Biology, and Medicine. | Disney MD | Journal of the American Chemical Society | 30896935 | J Am Chem Soc | 2019 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/30896935 |
| Precise small-molecule cleavage of an r(CUG) repeat expansion in a myotonic dystrophy mouse model. | Angelbello AJ, Rzuczek SG, Mckee KK, Chen JL, Olafson H, Cameron MD, Moss WN, Wang ET, Disney MD | Proceedings of the National Academy of Sciences of the United States of America | 30926669 | Proc Natl Acad Sci U S A | 2019 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/30926669 |
| The Hairpin Form of r(G(4)C(2))(exp) in c9ALS/FTD Is Repeat-Associated Non-ATG Translated and a Target for Bioactive Small Molecules. | Wang ZF, Ursu A, Childs-Disney JL, Guertler R, Yang WY, Bernat V, Rzuczek SG, Fuerst R, Zhang YJ, Gendron TF, Yildirim I, Dwyer BG, Rice JE, Petrucelli L, Disney MD | Cell chemical biology | 30503283 | Cell Chem Biol | 2019 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/30503283 |
| A blood-brain penetrant RNA-targeted small molecule triggers elimination of r(G(4)C(2))(exp) in c9ALS/FTD via the nuclear RNA exosome. | Bush JA, Meyer SM, Fuerst R, Tong Y, Li Y, Benhamou RI, Aikawa H, Zanon PRA, Gibaut QMR, Angelbello AJ, Gendron TF, Zhang YJ, Petrucelli L, Heick Jensen T, Childs-Disney JL, Disney MD | Proceedings of the National Academy of Sciences of the United States of America | 36409902 | Proc Natl Acad Sci U S A | 2022 Nov 29 | https://www.ncbi.nlm.nih.gov/pubmed/36409902 |
| Small molecule recognition of disease-relevant RNA structures. | Meyer SM, Williams CC, Akahori Y, Tanaka T, Aikawa H, Tong Y, Childs-Disney JL, Disney MD | Chemical Society reviews | 32975549 | Chem Soc Rev | 2020 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/32975549 |
| The RNA encoding the microtubule-associated protein tau has extensive structure that affects its biology. | Chen JL, Moss WN, Spencer A, Zhang P, Childs-Disney JL, Disney MD | PloS one | 31291322 | PLoS One | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31291322 |
| A Toxic RNA Catalyzes the Cellular Synthesis of Its Own Inhibitor, Shunting It to Endogenous Decay Pathways. | Benhamou RI, Angelbello AJ, Wang ET, Disney MD | Cell chemical biology | 31981476 | Cell Chem Biol | 2020 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/31981476 |
| A Toxic RNA Templates the Synthesis of Its Own Fluorogenic Inhibitor by Using a Bio-orthogonal Tetrazine Ligation in Cells and Tissues. | Angelbello AJ, Disney MD | ACS chemical biology | 32551539 | ACS Chem Biol | 2020 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/32551539 |
| Gini Coefficients as a Single Value Metric to Define Chemical Probe Selectivity. | Ursu A, Childs-Disney JL, Angelbello AJ, Costales MG, Meyer SM, Disney MD | ACS chemical biology | 32568503 | ACS Chem Biol | 2020 Aug 21 | https://www.ncbi.nlm.nih.gov/pubmed/32568503 |
| Optimization of the Linker Domain in a Dimeric Compound that Degrades an r(CUG) Repeat Expansion in Cells. | Benhamou RI, Abe M, Choudhary S, Meyer SM, Angelbello AJ, Disney MD | Journal of medicinal chemistry | 32657583 | J Med Chem | 2020 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/32657583 |
| Poly(GP) proteins are a useful pharmacodynamic marker for C9ORF72-associated amyotrophic lateral sclerosis. | Gendron TF, Chew J, Stankowski JN, Hayes LR, Zhang YJ, Prudencio M, Carlomagno Y, Daughrity LM, Jansen-West K, Perkerson EA, O'Raw A, Cook C, Pregent L, Belzil V, van Blitterswijk M, Tabassian LJ, Lee CW, Yue M, Tong J, Song Y, Castanedes-Casey M, Rousseau L, Phillips V, Dickson DW, Rademakers R, Fryer JD, Rush BK, Pedraza O, Caputo AM, Desaro P, Palmucci C, Robertson A, Heckman MG, Diehl NN, Wiggs E, Tierney M, Braun L, Farren J, Lacomis D, Ladha S, Fournier CN, McCluskey LF, Elman LB, Toledo JB, McBride JD, Tiloca C, Morelli C, Poletti B, Solca F, Prelle A, Wuu J, Jockel-Balsarotti J, Rigo F, Ambrose C, Datta A, Yang W, Raitcheva D, Antognetti G, McCampbell A, Van Swieten JC, Miller BL, Boxer AL, Brown RH, Bowser R, Miller TM, Trojanowski JQ, Grossman M, Berry JD, Hu WT, Ratti A, Traynor BJ, Disney MD, Benatar M, Silani V, Glass JD, Floeter MK, Rothstein JD, Boylan KB, Petrucelli L | Science translational medicine | 28356511 | Sci Transl Med | 2017 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/28356511 |
| Rational Design of Small Molecules Targeting Oncogenic Noncoding RNAs from Sequence. | Disney MD, Angelbello AJ | Accounts of chemical research | 27993012 | Acc Chem Res | 2016 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/27993012 |
| Design of a bioactive small molecule that targets r(AUUCU) repeats in spinocerebellar ataxia 10. | Yang WY, Gao R, Southern M, Sarkar PS, Disney MD | Nature communications | 27248057 | Nat Commun | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/27248057 |
| Translation of the intrinsically disordered protein α-synuclein is inhibited by a small molecule targeting its structured mRNA. | Zhang P, Park HJ, Zhang J, Junn E, Andrews RJ, Velagapudi SP, Abegg D, Vishnu K, Costales MG, Childs-Disney JL, Adibekian A, Moss WN, Mouradian MM, Disney MD | Proceedings of the National Academy of Sciences of the United States of America | 31900363 | Proc Natl Acad Sci U S A | 2020 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/31900363 |
| Development of pharmacophore models for small molecules targeting RNA: Application to the RNA repeat expansion in myotonic dystrophy type 1. | Angelbello AJ, González ÀL, Rzuczek SG, Disney MD | Bioorganic & medicinal chemistry letters | 27839685 | Bioorg Med Chem Lett | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/27839685 |
| Small molecule targeting of RNA structures in neurological disorders. | Angelbello AJ, Chen JL, Disney MD | Annals of the New York Academy of Sciences | 30964958 | Ann N Y Acad Sci | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30964958 |
| Ribonuclease recruitment using a small molecule reduced c9ALS/FTD r(G(4)C(2)) repeat expansion in vitro and in vivo ALS models. | Bush JA, Aikawa H, Fuerst R, Li Y, Ursu A, Meyer SM, Benhamou RI, Chen JL, Khan T, Wagner-Griffin S, Van Meter MJ, Tong Y, Olafson H, McKee KK, Childs-Disney JL, Gendron TF, Zhang Y, Coyne AN, Wang ET, Yildirim I, Wang KW, Petrucelli L, Rothstein JD, Disney MD | Science translational medicine | 34705518 | Sci Transl Med | 2021 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/34705518 |
| Progress toward the development of the small molecule equivalent of small interfering RNA. | Disney MD, Suresh BM, Benhamou RI, Childs-Disney JL | Current opinion in chemical biology | 32036231 | Curr Opin Chem Biol | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32036231 |
| Macrocyclization of a Ligand Targeting a Toxic RNA Dramatically Improves Potency. | Benhamou RI, Vezina-Dawod S, Choudhary S, Won Wang K, Meyer SM, Yildirim I, Disney MD | Chembiochem : a European journal of chemical biology | 32649032 | Chembiochem | 2020 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/32649032 |
| Design, Optimization, and Study of Small Molecules That Target Tau Pre-mRNA and Affect Splicing. | Chen JL, Zhang P, Abe M, Aikawa H, Zhang L, Frank AJ, Zembryski T, Hubbs C, Park H, Withka J, Steppan C, Rogers L, Cabral S, Pettersson M, Wager TT, Fountain MA, Rumbaugh G, Childs-Disney JL, Disney MD | Journal of the American Chemical Society | 32364710 | J Am Chem Soc | 2020 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/32364710 |
| Using Genome Sequence to Enable the Design of Medicines and Chemical Probes. | Angelbello AJ, Chen JL, Childs-Disney JL, Zhang P, Wang ZF, Disney MD | Chemical reviews | 29322778 | Chem Rev | 2018 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/29322778 |
| Identifying and validating small molecules interacting with RNA (SMIRNAs). | Disney MD, Velagapudi SP, Li Y, Costales MG, Childs-Disney JL | Methods in enzymology | 31239057 | Methods Enzymol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31239057 |
| Drugging the RNA World. | Disney MD, Dwyer BG, Childs-Disney JL | Cold Spring Harbor perspectives in biology | 30385607 | Cold Spring Harb Perspect Biol | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30385607 |
| A Small Molecule that Binds an RNA Repeat Expansion Stimulates Its Decay via the Exosome Complex. | Angelbello AJ, Benhamou RI, Rzuczek SG, Choudhary S, Tang Z, Chen JL, Roy M, Wang KW, Yildirim I, Jun AS, Thornton CA, Disney MD | Cell chemical biology | 33157036 | Cell Chem Biol | 2021 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/33157036 |
| Structural Features of Small Molecules Targeting the RNA Repeat Expansion That Causes Genetically Defined ALS/FTD. | Ursu A, Wang KW, Bush JA, Choudhary S, Chen JL, Baisden JT, Zhang YJ, Gendron TF, Petrucelli L, Yildirim I, Disney MD | ACS chemical biology | 33196168 | ACS Chem Biol | 2020 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/33196168 |
| Fragment-Based Approaches to Identify RNA Binders. | Suresh BM, Taghavi A, Childs-Disney JL, Disney MD | Journal of medicinal chemistry | 37186875 | J Med Chem | 2023 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/37186875 |
| ADAP1/Centaurin-α1 Negatively Regulates Dendritic Spine Function and Memory Formation in the Hippocampus. | Szatmari EM, Moran C, Cohen S, Jacob A, Parra-Bueno P, Kamasawa N, Guerrero-Given D, Klein M, Stackman R Jr, Yasuda R | eNeuro | 33139322 | eNeuro | 2021 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/33139322 |
| Reciprocal Activation within a Kinase-Effector Complex Underlying Persistence of Structural LTP. | Saneyoshi T, Matsuno H, Suzuki A, Murakoshi H, Hedrick NG, Agnello E, O'Connell R, Stratton MM, Yasuda R, Hayashi Y | Neuron | 31078368 | Neuron | 2019 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/31078368 |
| Automated Remote Focusing, Drift Correction, and Photostimulation to Evaluate Structural Plasticity in Dendritic Spines. | Smirnov MS, Evans PR, Garrett TR, Yan L, Yasuda R | PloS one | 28114380 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28114380 |
| High-Throughput, High-Resolution Mapping of Protein Localization in Mammalian Brain by In Vivo Genome Editing. | Mikuni T, Nishiyama J, Sun Y, Kamasawa N, Yasuda R | Cell | 27180908 | Cell | 2016 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/27180908 |
| Simultaneous dual-color fluorescence lifetime imaging with novel red-shifted fluorescent proteins. | Laviv T, Kim BB, Chu J, Lam AJ, Lin MZ, Yasuda R | Nature methods | 27798609 | Nat Methods | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27798609 |
| Imaging ERK and PKA Activation in Single Dendritic Spines during Structural Plasticity. | Tang S, Yasuda R | Neuron | 28285819 | Neuron | 2017 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/28285819 |
| CaMKII Autophosphorylation Is Necessary for Optimal Integration of Ca(2+) Signals during LTP Induction, but Not Maintenance. | Chang JY, Parra-Bueno P, Laviv T, Szatmari EM, Lee SR, Yasuda R | Neuron | 28521133 | Neuron | 2017 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/28521133 |
| Autocrine BDNF-TrkB signalling within a single dendritic spine. | Harward SC, Hedrick NG, Hall CE, Parra-Bueno P, Milner TA, Pan E, Laviv T, Hempstead BL, Yasuda R, McNamara JO | Nature | 27680698 | Nature | 2016 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/27680698 |
| An open-source tool for analysis and automatic identification of dendritic spines using machine learning. | Smirnov MS, Garrett TR, Yasuda R | PloS one | 29975722 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29975722 |
| Rho GTPase complementation underlies BDNF-dependent homo- and heterosynaptic plasticity. | Hedrick NG, Harward SC, Hall CE, Murakoshi H, McNamara JO, Yasuda R | Nature | 27680697 | Nature | 2016 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/27680697 |
| Longitudinal Two-Photon Imaging of Dorsal Hippocampal CA1 in Live Mice. | Ulivi AF, Castello-Waldow TP, Weston G, Yan L, Yasuda R, Chen A, Attardo A | Journal of visualized experiments : JoVE | 31282875 | J Vis Exp | 2019 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/31282875 |
| The NMDA receptor subunit GluN3A regulates synaptic activity-induced and myocyte enhancer factor 2C (MEF2C)-dependent transcription. | Chen LF, Lyons MR, Liu F, Green MV, Hedrick NG, Williams AB, Narayanan A, Yasuda R, West AE | The Journal of biological chemistry | 32393578 | J Biol Chem | 2020 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/32393578 |
| In Vivo Imaging of the Coupling between Neuronal and CREB Activity in the Mouse Brain. | Laviv T, Scholl B, Parra-Bueno P, Foote B, Zhang C, Yan L, Hayano Y, Chu J, Yasuda R | Neuron | 31883788 | Neuron | 2020 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/31883788 |
| Kinetics of Endogenous CaMKII Required for Synaptic Plasticity Revealed by Optogenetic Kinase Inhibitor. | Murakoshi H, Shin ME, Parra-Bueno P, Szatmari EM, Shibata ACE, Yasuda R | Neuron | 28318784 | Neuron | 2017 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/28318784 |
| Rapid Ultrastructural Changes in the PSD and Surrounding Membrane after Induction of Structural LTP in Single Dendritic Spines. | Sun Y, Smirnov M, Kamasawa N, Yasuda R | The Journal of neuroscience : the official journal of the Society for Neuroscience | 34266899 | J Neurosci | 2021 Aug 18 | https://www.ncbi.nlm.nih.gov/pubmed/34266899 |
| RGS14 Restricts Plasticity in Hippocampal CA2 by Limiting Postsynaptic Calcium Signaling. | Evans PR, Parra-Bueno P, Smirnov MS, Lustberg DJ, Dudek SM, Hepler JR, Yasuda R | eNeuro | 29911178 | eNeuro | 2018 May-Jun | https://www.ncbi.nlm.nih.gov/pubmed/29911178 |
| PKCα integrates spatiotemporally distinct Ca(2+) and autocrine BDNF signaling to facilitate synaptic plasticity. | Colgan LA, Hu M, Misler JA, Parra-Bueno P, Moran CM, Leitges M, Yasuda R | Nature neuroscience | 30013171 | Nat Neurosci | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30013171 |
| Virus-Mediated Genome Editing via Homology-Directed Repair in Mitotic and Postmitotic Cells in Mammalian Brain. | Nishiyama J, Mikuni T, Yasuda R | Neuron | 29056297 | Neuron | 2017 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/29056297 |
| Mechanisms of Ca(2+)/calmodulin-dependent kinase II activation in single dendritic spines. | Chang JY, Nakahata Y, Hayano Y, Yasuda R | Nature communications | 31239443 | Nat Commun | 2019 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/31239443 |
| FRET Imaging of Rho GTPase Activity with Red Fluorescent Protein-Based FRET Pairs. | Bajar BT, Guan X, Lam A, Lin MZ, Yasuda R, Laviv T, Chu J | Methods in molecular biology (Clifton, N.J.) | 35147933 | Methods Mol Biol | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35147933 |
| Rab10 inactivation promotes AMPAR trafficking and spine enlargement during long-term potentiation. | Wang J, Nishiyama J, Parra-Bueno P, Okaz E, Oz G, Liu X, Watabe T, Suponitsky-Kroyter I, McGraw TE, Szatmari EM, Yasuda R | bioRxiv : the preprint server for biology | 40501544 | bioRxiv | 2025 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/40501544 |
| Gradual Suppression of Transcytosis Governs Functional Blood-Retinal Barrier Formation. | Chow BW, Gu C | Neuron | 28334606 | Neuron | 2017 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/28334606 |
| Control of cerebrovascular patterning by neural activity during postnatal development. | Lacoste B, Gu C | Mechanisms of development | 26116138 | Mech Dev | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26116138 |
| Caveolae in CNS arterioles mediate neurovascular coupling. | Chow BW, Nuñez V, Kaplan L, Granger AJ, Bistrong K, Zucker HL, Kumar P, Sabatini BL, Gu C | Nature | 32076269 | Nature | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32076269 |
| Spreading depolarizations trigger caveolin-1-dependent endothelial transcytosis. | Sadeghian H, Lacoste B, Qin T, Toussay X, Rosa R, Oka F, Chung DY, Takizawa T, Gu C, Ayata C | Annals of neurology | 30014540 | Ann Neurol | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30014540 |
| Bridging barriers: a comparative look at the blood-brain barrier across organisms. | O'Brown NM, Pfau SJ, Gu C | Genes & development | 29692355 | Genes Dev | 2018 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/29692355 |
| Canonical Wnt Signaling Suppresses Brain Endothelial Cell Transcytosis to Maintain Blood-Brain Barrier Integrity. | du Maine X, Gu C | bioRxiv : the preprint server for biology | 40161584 | bioRxiv | 2025 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/40161584 |
| Neuronal and vascular interactions. | Andreone BJ, Lacoste B, Gu C | Annual review of neuroscience | 25782970 | Annu Rev Neurosci | 2015 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/25782970 |
| Temporal modulation of collective cell behavior controls vascular network topology. | Kur E, Kim J, Tata A, Comin CH, Harrington KI, Costa Lda F, Bentley K, Gu C | eLife | 26910011 | Elife | 2016 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/26910011 |
| Suppression of transcytosis regulates zebrafish blood-brain barrier function. | O'Brown NM, Megason SG, Gu C | eLife | 31429822 | Elife | 2019 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/31429822 |
| Neuronal regulation of the blood-brain barrier and neurovascular coupling. | Kaplan L, Chow BW, Gu C | Nature reviews. Neuroscience | 32636528 | Nat Rev Neurosci | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32636528 |
| Structure and mechanism of blood-brain-barrier lipid transporter MFSD2A. | Wood CAP, Zhang J, Aydin D, Xu Y, Andreone BJ, Langen UH, Dror RO, Gu C, Feng L | Nature | 34349262 | Nature | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34349262 |
| Characteristics of blood-brain barrier heterogeneity between brain regions revealed by profiling vascular and perivascular cells. | Pfau SJ, Langen UH, Fisher TM, Prakash I, Nagpurwala F, Lozoya RA, Lee WA, Wu Z, Gu C | Nature neuroscience | 39210068 | Nat Neurosci | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39210068 |
| Blood-Brain Barrier Permeability Is Regulated by Lipid Transport-Dependent Suppression of Caveolae-Mediated Transcytosis. | Andreone BJ, Chow BW, Tata A, Lacoste B, Ben-Zvi A, Bullock K, Deik AA, Ginty DD, Clish CB, Gu C | Neuron | 28416077 | Neuron | 2017 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/28416077 |
| The molecular constituents of the blood-brain barrier. | Chow BW, Gu C | Trends in neurosciences | 26442694 | Trends Neurosci | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26442694 |
| Development and Cell Biology of the Blood-Brain Barrier. | Langen UH, Ayloo S, Gu C | Annual review of cell and developmental biology | 31299172 | Annu Rev Cell Dev Biol | 2019 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/31299172 |
| Transcytosis at the blood-brain barrier. | Ayloo S, Gu C | Current opinion in neurobiology | 30708291 | Curr Opin Neurobiol | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30708291 |
| Pericyte-to-endothelial cell signaling via vitronectin-integrin regulates blood-CNS barrier. | Ayloo S, Lazo CG, Sun S, Zhang W, Cui B, Gu C | Neuron | 35294899 | Neuron | 2022 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/35294899 |
| A direct-to-drive neural data acquisition system. | Kinney JP, Bernstein JG, Meyer AJ, Barber JB, Bolivar M, Newbold B, Scholvin J, Moore-Kochlacs C, Wentz CT, Kopell NJ, Boyden ES | Frontiers in neural circuits | 26388740 | Front Neural Circuits | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26388740 |
| RNA timestamps identify the age of single molecules in RNA sequencing. | Rodriques SG, Chen LM, Liu S, Zhong ED, Scherrer JR, Boyden ES, Chen F | Nature biotechnology | 33077959 | Nat Biotechnol | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33077959 |
| Spatial Multiplexing of Fluorescent Reporters for Imaging Signaling Network Dynamics. | Linghu C, Johnson SL, Valdes PA, Shemesh OA, Park WM, Park D, Piatkevich KD, Wassie AT, Liu Y, An B, Barnes SA, Celiker OT, Yao CC, Yu CJ, Wang R, Adamala KP, Bear MF, Keating AE, Boyden ES | Cell | 33232692 | Cell | 2020 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/33232692 |
| Noninvasive Deep Brain Stimulation via Temporally Interfering Electric Fields. | Grossman N, Bono D, Dedic N, Kodandaramaiah SB, Rudenko A, Suk HJ, Cassara AM, Neufeld E, Kuster N, Tsai LH, Pascual-Leone A, Boyden ES | Cell | 28575667 | Cell | 2017 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/28575667 |
| Green fluorescent genetically encoded calcium indicator based on calmodulin/M13-peptide from fungi. | Barykina NV, Subach OM, Piatkevich KD, Jung EE, Malyshev AY, Smirnov IV, Bogorodskiy AO, Borshchevskiy VI, Varizhuk AM, Pozmogova GE, Boyden ES, Anokhin KV, Enikolopov GN, Subach FV | PloS one | 28837632 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28837632 |
| Sonofragmentation of Ultrathin 1D Nanomaterials. | Gao R, Gupta I, Boyden ES | Particle & particle systems characterization : measurement and description of particle properties and behavior in powders and other disperse systems | 28804214 | Part Part Syst Charact | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28804214 |
| A robotic multidimensional directed evolution approach applied to fluorescent voltage reporters. | Piatkevich KD, Jung EE, Straub C, Linghu C, Park D, Suk HJ, Hochbaum DR, Goodwin D, Pnevmatikakis E, Pak N, Kawashima T, Yang CT, Rhoades JL, Shemesh O, Asano S, Yoon YG, Freifeld L, Saulnier JL, Riegler C, Engert F, Hughes T, Drobizhev M, Szabo B, Ahrens MB, Flavell SW, Sabatini BL, Boyden ES | Nature chemical biology | 29483642 | Nat Chem Biol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29483642 |
| Designing tools for assumption-proof brain mapping. | Marblestone AH, Boyden ES | Neuron | 25233303 | Neuron | 2014 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/25233303 |
| A highly homogeneous polymer composed of tetrahedron-like monomers for high-isotropy expansion microscopy. | Gao R, Yu CJ, Gao L, Piatkevich KD, Neve RL, Munro JB, Upadhyayula S, Boyden ES | Nature nanotechnology | 33782587 | Nat Nanotechnol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33782587 |
| Principles of designing interpretable optogenetic behavior experiments. | Allen BD, Singer AC, Boyden ES | Learning & memory (Cold Spring Harbor, N.Y.) | 25787711 | Learn Mem | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25787711 |
| Cortical column and whole-brain imaging with molecular contrast and nanoscale resolution. | Gao R, Asano SM, Upadhyayula S, Pisarev I, Milkie DE, Liu TL, Singh V, Graves A, Huynh GH, Zhao Y, Bogovic J, Colonell J, Ott CM, Zugates C, Tappan S, Rodriguez A, Mosaliganti KR, Sheu SH, Pasolli HA, Pang S, Xu CS, Megason SG, Hess H, Lippincott-Schwartz J, Hantman A, Rubin GM, Kirchhausen T, Saalfeld S, Aso Y, Boyden ES, Betzig E | Science (New York, N.Y.) | 30655415 | Science | 2019 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/30655415 |
| Evidence for Long-Timescale Patterns of Synaptic Inputs in CA1 of Awake Behaving Mice. | Kolb I, Talei Franzesi G, Wang M, Kodandaramaiah SB, Forest CR, Boyden ES, Singer AC | The Journal of neuroscience : the official journal of the Society for Neuroscience | 29279309 | J Neurosci | 2018 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/29279309 |
| A theoretical analysis of single molecule protein sequencing via weak binding spectra. | Rodriques SG, Marblestone AH, Boyden ES | PloS one | 30921350 | PLoS One | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30921350 |
| Oxytocin-dependent reopening of a social reward learning critical period with MDMA. | Nardou R, Lewis EM, Rothhaas R, Xu R, Yang A, Boyden E, Dölen G | Nature | 30944474 | Nature | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30944474 |
| Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy. | Zhao Y, Bucur O, Irshad H, Chen F, Weins A, Stancu AL, Oh EY, DiStasio M, Torous V, Glass B, Stillman IE, Schnitt SJ, Beck AH, Boyden ES | Nature biotechnology | 28714966 | Nat Biotechnol | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28714966 |
| Nucleotide-time alignment for molecular recorders. | Cybulski TR, Boyden ES, Church GM, Tyo KEJ, Kording KP | PLoS computational biology | 28459860 | PLoS Comput Biol | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28459860 |
| Iterative expansion microscopy. | Chang JB, Chen F, Yoon YG, Jung EE, Babcock H, Kang JS, Asano S, Suk HJ, Pak N, Tillberg PW, Wassie AT, Cai D, Boyden ES | Nature methods | 28417997 | Nat Methods | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28417997 |
| Mesoscale-duration activated states gate spiking in response to fast rises in membrane voltage in the awake brain. | Singer AC, Talei Franzesi G, Kodandaramaiah SB, Flores FJ, Cohen JD, Lee AK, Borgers C, Forest CR, Kopell NJ, Boyden ES | Journal of neurophysiology | 28566460 | J Neurophysiol | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28566460 |
| A novel flexible cuff-like microelectrode for dual purpose, acute and chronic electrical interfacing with the mouse cervical vagus nerve. | Caravaca AS, Tsaava T, Goldman L, Silverman H, Riggott G, Chavan SS, Bouton C, Tracey KJ, Desimone R, Boyden ES, Sohal HS, Olofsson PS | Journal of neural engineering | 28628030 | J Neural Eng | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28628030 |
| Multiplexed neural recording along a single optical fiber via optical reflectometry. | Rodriques SG, Marblestone AH, Scholvin J, Dapello J, Sarkar D, Mankin M, Gao R, Wood L, Boyden ES | Journal of biomedical optics | 27194640 | J Biomed Opt | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/27194640 |
| Gamma frequency entrainment attenuates amyloid load and modifies microglia. | Iaccarino HF, Singer AC, Martorell AJ, Rudenko A, Gao F, Gillingham TZ, Mathys H, Seo J, Kritskiy O, Abdurrob F, Adaikkan C, Canter RG, Rueda R, Brown EN, Boyden ES, Tsai LH | Nature | 27929004 | Nature | 2016 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/27929004 |
| Optical imaging. Expansion microscopy. | Chen F, Tillberg PW, Boyden ES | Science (New York, N.Y.) | 25592419 | Science | 2015 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/25592419 |
| Expansion Microscopy: Protocols for Imaging Proteins and RNA in Cells and Tissues. | Asano SM, Gao R, Wassie AT, Tillberg PW, Chen F, Boyden ES | Current protocols in cell biology | 30070431 | Curr Protoc Cell Biol | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30070431 |
| Expansion microscopy: principles and uses in biological research. | Wassie AT, Zhao Y, Boyden ES | Nature methods | 30573813 | Nat Methods | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30573813 |
| Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies. | Tillberg PW, Chen F, Piatkevich KD, Zhao Y, Yu CC, English BP, Gao L, Martorell A, Suk HJ, Yoshida F, DeGennaro EM, Roossien DH, Gong G, Seneviratne U, Tannenbaum SR, Desimone R, Cai D, Boyden ES | Nature biotechnology | 27376584 | Nat Biotechnol | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27376584 |
| Closed-loop, ultraprecise, automated craniotomies. | Pak N, Siegle JH, Kinney JP, Denman DJ, Blanche TJ, Boyden ES | Journal of neurophysiology | 25855700 | J Neurophysiol | 2015 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/25855700 |
| Closed-Loop Real-Time Imaging Enables Fully Automated Cell-Targeted Patch-Clamp Neural Recording In Vivo. | Suk HJ, van Welie I, Kodandaramaiah SB, Allen B, Forest CR, Boyden ES | Neuron | 28858614 | Neuron | 2017 Aug 30 | https://www.ncbi.nlm.nih.gov/pubmed/28858614 |
| Closed-Loop Real-Time Imaging Enables Fully Automated Cell-Targeted Patch-Clamp Neural Recording In Vivo. | Suk HJ, van Welie I, Kodandaramaiah SB, Allen B, Forest CR, Boyden ES | Neuron | 28957673 | Neuron | 2017 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/28957673 |
| Physical principles for scalable neural recording. | Marblestone AH, Zamft BM, Maguire YG, Shapiro MG, Cybulski TR, Glaser JI, Amodei D, Stranges PB, Kalhor R, Dalrymple DA, Seo D, Alon E, Maharbiz MM, Carmena JM, Rabaey JM, Boyden ES, Church GM, Kording KP | Frontiers in computational neuroscience | 24187539 | Front Comput Neurosci | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24187539 |
| Spatial information in large-scale neural recordings. | Cybulski TR, Glaser JI, Marblestone AH, Zamft BM, Boyden ES, Church GM, Kording KP | Frontiers in computational neuroscience | 25653613 | Front Comput Neurosci | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25653613 |
| Assembly and operation of the autopatcher for automated intracellular neural recording in vivo. | Kodandaramaiah SB, Holst GL, Wickersham IR, Singer AC, Franzesi GT, McKinnon ML, Forest CR, Boyden ES | Nature protocols | 26938115 | Nat Protoc | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26938115 |
| In situ genome sequencing resolves DNA sequence and structure in intact biological samples. | Payne AC, Chiang ZD, Reginato PL, Mangiameli SM, Murray EM, Yao CC, Markoulaki S, Earl AS, Labade AS, Jaenisch R, Church GM, Boyden ES, Buenrostro JD, Chen F | Science (New York, N.Y.) | 33384301 | Science | 2021 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/33384301 |
| Automated in vivo patch-clamp evaluation of extracellular multielectrode array spike recording capability. | Allen BD, Moore-Kochlacs C, Bernstein JG, Kinney JP, Scholvin J, Seoane LF, Chronopoulos C, Lamantia C, Kodandaramaiah SB, Tegmark M, Boyden ES | Journal of neurophysiology | 29995597 | J Neurophysiol | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/29995597 |
| Precision Calcium Imaging of Dense Neural Populations via a Cell-Body-Targeted Calcium Indicator. | Shemesh OA, Linghu C, Piatkevich KD, Goodwin D, Celiker OT, Gritton HJ, Romano MF, Gao R, Yu CJ, Tseng HA, Bensussen S, Narayan S, Yang CT, Freifeld L, Siciliano CA, Gupta I, Wang J, Pak N, Yoon YG, Ullmann JFP, Guner-Ataman B, Noamany H, Sheinkopf ZR, Park WM, Asano S, Keating AE, Trimmer JS, Reimer J, Tolias AS, Bear MF, Tye KM, Han X, Ahrens MB, Boyden ES | Neuron | 32592656 | Neuron | 2020 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/32592656 |
| Advances in the automation of whole-cell patch clamp technology. | Suk HJ, Boyden ES, van Welie I | Journal of neuroscience methods | 31336060 | J Neurosci Methods | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/31336060 |
| Population imaging of neural activity in awake behaving mice. | Piatkevich KD, Bensussen S, Tseng HA, Shroff SN, Lopez-Huerta VG, Park D, Jung EE, Shemesh OA, Straub C, Gritton HJ, Romano MF, Costa E, Sabatini BL, Fu Z, Boyden ES, Han X | Nature | 31597963 | Nature | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31597963 |
| Nanoscale imaging of RNA with expansion microscopy. | Chen F, Wassie AT, Cote AJ, Sinha A, Alon S, Asano S, Daugharthy ER, Chang JB, Marblestone A, Church GM, Raj A, Boyden ES | Nature methods | 27376770 | Nat Methods | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27376770 |
| Close-Packed Silicon Microelectrodes for Scalable Spatially Oversampled Neural Recording. | Scholvin J, Kinney JP, Bernstein JG, Moore-Kochlacs C, Kopell N, Fonstad CG, Boyden ES | IEEE transactions on bio-medical engineering | 26699649 | IEEE Trans Biomed Eng | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26699649 |
| Engineering genetic circuit interactions within and between synthetic minimal cells. | Adamala KP, Martin-Alarcon DA, Guthrie-Honea KR, Boyden ES | Nature chemistry | 28430194 | Nat Chem | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28430194 |
| Cell diversity and network dynamics in photosensitive human brain organoids. | Quadrato G, Nguyen T, Macosko EZ, Sherwood JL, Min Yang S, Berger DR, Maria N, Scholvin J, Goldman M, Kinney JP, Boyden ES, Lichtman JW, Williams ZM, McCarroll SA, Arlotta P | Nature | 28445462 | Nature | 2017 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/28445462 |
| Programmable RNA-binding protein composed of repeats of a single modular unit. | Adamala KP, Martin-Alarcon DA, Boyden ES | Proceedings of the National Academy of Sciences of the United States of America | 27118836 | Proc Natl Acad Sci U S A | 2016 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/27118836 |
| Hybrid Microscopy: Enabling Inexpensive High-Performance Imaging through Combined Physical and Optical Magnifications. | Zhang YS, Chang JB, Alvarez MM, Trujillo-de Santiago G, Aleman J, Batzaya B, Krishnadoss V, Ramanujam AA, Kazemzadeh-Narbat M, Chen F, Tillberg PW, Dokmeci MR, Boyden ES, Khademhosseini A | Scientific reports | 26975883 | Sci Rep | 2016 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/26975883 |
| 3D nanofabrication by volumetric deposition and controlled shrinkage of patterned scaffolds. | Oran D, Rodriques SG, Gao R, Asano S, Skylar-Scott MA, Chen F, Tillberg PW, Marblestone AH, Boyden ES | Science (New York, N.Y.) | 30545883 | Science | 2018 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/30545883 |
| Expansion Mini-Microscopy: An Enabling Alternative in Point-of-Care Diagnostics. | Zhang YS, Santiago GT, Alvarez MM, Schiff SJ, Boyden ES, Khademhosseini A | Current opinion in biomedical engineering | 29062977 | Curr Opin Biomed Eng | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29062977 |
| Feasibility of 3D Reconstruction of Neural Morphology Using Expansion Microscopy and Barcode-Guided Agglomeration. | Yoon YG, Dai P, Wohlwend J, Chang JB, Marblestone AH, Boyden ES | Frontiers in computational neuroscience | 29114215 | Front Comput Neurosci | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29114215 |
| Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy. | Prevedel R, Yoon YG, Hoffmann M, Pak N, Wetzstein G, Kato S, Schrödel T, Raskar R, Zimmer M, Boyden ES, Vaziri A | Nature methods | 24836920 | Nat Methods | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24836920 |
| Temporally precise single-cell-resolution optogenetics. | Shemesh OA, Tanese D, Zampini V, Linghu C, Piatkevich K, Ronzitti E, Papagiakoumou E, Boyden ES, Emiliani V | Nature neuroscience | 29184208 | Nat Neurosci | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29184208 |
| Scalable, Modular Three-Dimensional Silicon Microelectrode Assembly via Electroless Plating. | Scholvin J, Zorzos A, Kinney J, Bernstein J, Moore-Kochlacs C, Kopell N, Fonstad C, Boyden ES | Micromachines | 30424369 | Micromachines (Basel) | 2018 Aug 30 | https://www.ncbi.nlm.nih.gov/pubmed/30424369 |
| Revealing nanostructures in brain tissue via protein decrowding by iterative expansion microscopy. | Sarkar D, Kang J, Wassie AT, Schroeder ME, Peng Z, Tarr TB, Tang AH, Niederst ED, Young JZ, Su H, Park D, Yin P, Tsai LH, Blanpied TA, Boyden ES | Nature biomedical engineering | 36038771 | Nat Biomed Eng | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36038771 |
| Dense, Continuous Membrane Labeling and Expansion Microscopy Visualization of Ultrastructure in Tissues. | Shin TW, Wang H, Zhang C, An B, Lu Y, Zhang E, Lu X, Karagiannis ED, Kang JS, Emenari A, Symvoulidis P, Asano S, Lin L, Costa EK, IMAXT Grand Challenge Consortium, Marblestone AH, Kasthuri N, Tsai LH, Boyden ES | bioRxiv : the preprint server for biology | 38496681 | bioRxiv | 2024 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/38496681 |
| Dense, continuous membrane labeling and expansion microscopy visualization of ultrastructure in tissues. | Shin TW, Wang H, Zhang C, An B, Lu Y, Zhang E, Lu X, Karagiannis ED, Kang JS, Emenari A, Symvoulidis P, Asano S, Lin L, Costa EK, IMAXT Grand Challenge Consortium, Marblestone AH, Kasthuri N, Tsai LH, Boyden ES | Nature communications | 39939319 | Nat Commun | 2025 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/39939319 |
| Nanoscale Resolution Imaging of Whole Mouse Embryos Using Expansion Microscopy. | Sim J, Park CE, Cho I, Min K, Eom M, Han S, Jeon H, Cho ES, Lee Y, Yun YH, Lee S, Cheon DH, Kim J, Kim M, Cho HJ, Park JW, Kumar A, Chong Y, Kang JS, Piatkevich KD, Jung EE, Kang DS, Kwon SK, Kim J, Yoon KJ, Lee JS, Kim CH, Choi M, Kim JW, Song MR, Choi HJ, Boyden ES, Yoon YG, Chang JB | ACS nano | 39964913 | ACS Nano | 2025 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/39964913 |
| Unsupervised deep learning identifies semantic disentanglement in single inferotemporal face patch neurons. | Higgins I, Chang L, Langston V, Hassabis D, Summerfield C, Tsao D, Botvinick M | Nature communications | 34753913 | Nat Commun | 2021 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/34753913 |
| Mice and primates use distinct strategies for visual segmentation. | Luongo FJ, Liu L, Ho CLA, Hesse JK, Wekselblatt JB, Lanfranchi FF, Huber D, Tsao DY | eLife | 36790170 | Elife | 2023 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/36790170 |
| Temporal multiplexing of perception and memory codes in IT cortex. | She L, Benna MK, Shi Y, Fusi S, Tsao DY | Nature | 38750353 | Nature | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/38750353 |
| A network for scene processing in the macaque temporal lobe. | Kornblith S, Cheng X, Ohayon S, Tsao DY | Neuron | 23891401 | Neuron | 2013 Aug 21 | https://www.ncbi.nlm.nih.gov/pubmed/23891401 |
| A map of object space in primate inferotemporal cortex. | Bao P, She L, McGill M, Tsao DY | Nature | 32494012 | Nature | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32494012 |
| Zebrafish neurobiology: from development to circuit function and behaviour. | Engert F, Wilson SW | Developmental neurobiology | 22058058 | Dev Neurobiol | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22058058 |
| A high-throughput assay for quantifying appetite and digestive dynamics. | Jordi J, Guggiana-Nilo D, Soucy E, Song EY, Lei Wee C, Engert F | American journal of physiology. Regulatory, integrative and comparative physiology | 26108871 | Am J Physiol Regul Integr Comp Physiol | 2015 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/26108871 |
| Whole-brain activity mapping onto a zebrafish brain atlas. | Randlett O, Wee CL, Naumann EA, Nnaemeka O, Schoppik D, Fitzgerald JE, Portugues R, Lacoste AM, Riegler C, Engert F, Schier AF | Nature methods | 26778924 | Nat Methods | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26778924 |
| Brain-wide mapping of neural activity controlling zebrafish exploratory locomotion. | Dunn TW, Mu Y, Narayan S, Randlett O, Naumann EA, Yang CT, Schier AF, Freeman J, Engert F, Ahrens MB | eLife | 27003593 | Elife | 2016 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/27003593 |
| Properties of the Visible Light Phototaxis and UV Avoidance Behaviors in the Larval Zebrafish. | Guggiana-Nilo DA, Engert F | Frontiers in behavioral neuroscience | 27594828 | Front Behav Neurosci | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27594828 |
| Whole-brain serial-section electron microscopy in larval zebrafish. | Hildebrand DGC, Cicconet M, Torres RM, Choi W, Quan TM, Moon J, Wetzel AW, Scott Champion A, Graham BJ, Randlett O, Plummer GS, Portugues R, Bianco IH, Saalfeld S, Baden AD, Lillaney K, Burns R, Vogelstein JT, Schier AF, Lee WA, Jeong WK, Lichtman JW, Engert F | Nature | 28489821 | Nature | 2017 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/28489821 |
| A novel mechanism for mechanosensory-based rheotaxis in larval zebrafish. | Oteiza P, Odstrcil I, Lauder G, Portugues R, Engert F | Nature | 28700578 | Nature | 2017 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/28700578 |
| Lamellar projections in the endolymphatic sac act as a relief valve to regulate inner ear pressure. | Swinburne IA, Mosaliganti KR, Upadhyayula S, Liu TL, Hildebrand DGC, Tsai TY, Chen A, Al-Obeidi E, Fass AK, Malhotra S, Engert F, Lichtman JW, Kirchhausen T, Betzig E, Megason SG | eLife | 29916365 | Elife | 2018 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/29916365 |
| Two-photon calcium imaging during fictive navigation in virtual environments. | Ahrens MB, Huang KH, Narayan S, Mensh BD, Engert F | Frontiers in neural circuits | 23761738 | Front Neural Circuits | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23761738 |
| Visuomotor transformations underlying hunting behavior in zebrafish. | Bianco IH, Engert F | Current biology : CB | 25754638 | Curr Biol | 2015 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/25754638 |
| A Brain-wide Circuit Model of Heat-Evoked Swimming Behavior in Larval Zebrafish. | Haesemeyer M, Robson DN, Li JM, Schier AF, Engert F | Neuron | 29731253 | Neuron | 2018 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/29731253 |
| Brain-wide neuronal dynamics during motor adaptation in zebrafish. | Ahrens MB, Li JM, Orger MB, Robson DN, Schier AF, Engert F, Portugues R | Nature | 22622571 | Nature | 2012 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/22622571 |
| Whole-field visual motion drives swimming in larval zebrafish via a stochastic process. | Portugues R, Haesemeyer M, Blum ML, Engert F | The Journal of experimental biology | 25792753 | J Exp Biol | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25792753 |
| Whole-brain activity maps reveal stereotyped, distributed networks for visuomotor behavior. | Portugues R, Feierstein CE, Engert F, Orger MB | Neuron | 24656252 | Neuron | 2014 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/24656252 |
| Neural control and modulation of swimming speed in the larval zebrafish. | Severi KE, Portugues R, Marques JC, O'Malley DM, Orger MB, Engert F | Neuron | 25066084 | Neuron | 2014 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/25066084 |
| Simultaneous mapping of membrane voltage and calcium in zebrafish heart in vivo reveals chamber-specific developmental transitions in ionic currents. | Hou JH, Kralj JM, Douglass AD, Engert F, Cohen AE | Frontiers in physiology | 25309445 | Front Physiol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25309445 |
| The structure and timescales of heat perception in larval zebrafish. | Haesemeyer M, Robson DN, Li JM, Schier AF, Engert F | Cell systems | 26640823 | Cell Syst | 2015 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/26640823 |
| From Whole-Brain Data to Functional Circuit Models: The Zebrafish Optomotor Response. | Naumann EA, Fitzgerald JE, Dunn TW, Rihel J, Sompolinsky H, Engert F | Cell | 27814522 | Cell | 2016 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/27814522 |
| The big data problem: turning maps into knowledge. | Engert F | Neuron | 25233305 | Neuron | 2014 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/25233305 |
| Identification of nonvisual photomotor response cells in the vertebrate hindbrain. | Kokel D, Dunn TW, Ahrens MB, Alshut R, Cheung CY, Saint-Amant L, Bruni G, Mateus R, van Ham TJ, Shiraki T, Fukada Y, Kojima D, Yeh JR, Mikut R, von Lintig J, Engert F, Peterson RT | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23447595 | J Neurosci | 2013 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/23447595 |
| A convergent and essential interneuron pathway for Mauthner-cell-mediated escapes. | Lacoste AM, Schoppik D, Robson DN, Haesemeyer M, Portugues R, Li JM, Randlett O, Wee CL, Engert F, Schier AF | Current biology : CB | 25959971 | Curr Biol | 2015 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/25959971 |
| The neural basis of visual behaviors in the larval zebrafish. | Portugues R, Engert F | Current opinion in neurobiology | 19896836 | Curr Opin Neurobiol | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19896836 |
| Organ-targeted high-throughput in vivo biologics screen identifies materials for RNA delivery. | Chang TY, Shi P, Steinmeyer JD, Chatnuntawech I, Tillberg P, Love KT, Eimon PM, Anderson DG, Yanik MF | Integrative biology : quantitative biosciences from nano to macro | 25184623 | Integr Biol (Camb) | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25184623 |
| Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects. | Eimon PM, Ghannad-Rezaie M, De Rienzo G, Allalou A, Wu Y, Gao M, Roy A, Skolnick J, Yanik MF | Nature communications | 29335539 | Nat Commun | 2018 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/29335539 |
| Automated deep-phenotyping of the vertebrate brain. | Allalou A, Wu Y, Ghannad-Rezaie M, Eimon PM, Yanik MF | eLife | 28406399 | Elife | 2017 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/28406399 |
| Basal Forebrain Cholinergic Circuits and Signaling in Cognition and Cognitive Decline. | Ballinger EC, Ananth M, Talmage DA, Role LW | Neuron | 27657448 | Neuron | 2016 Sep 21 | https://www.ncbi.nlm.nih.gov/pubmed/27657448 |
| hnRNP U protein is required for normal pre-mRNA splicing and postnatal heart development and function. | Ye J, Beetz N, O'Keeffe S, Tapia JC, Macpherson L, Chen WV, Bassel-Duby R, Olson EN, Maniatis T | Proceedings of the National Academy of Sciences of the United States of America | 26039991 | Proc Natl Acad Sci U S A | 2015 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/26039991 |
| Intricate interplay between astrocytes and motor neurons in ALS. | Phatnani HP, Guarnieri P, Friedman BA, Carrasco MA, Muratet M, O'Keeffe S, Nwakeze C, Pauli-Behn F, Newberry KM, Meadows SK, Tapia JC, Myers RM, Maniatis T | Proceedings of the National Academy of Sciences of the United States of America | 23388633 | Proc Natl Acad Sci U S A | 2013 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/23388633 |
| Astrocyte pathology and the absence of non-cell autonomy in an induced pluripotent stem cell model of TDP-43 proteinopathy. | Serio A, Bilican B, Barmada SJ, Ando DM, Zhao C, Siller R, Burr K, Haghi G, Story D, Nishimura AL, Carrasco MA, Phatnani HP, Shum C, Wilmut I, Maniatis T, Shaw CE, Finkbeiner S, Chandran S | Proceedings of the National Academy of Sciences of the United States of America | 23401527 | Proc Natl Acad Sci U S A | 2013 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/23401527 |
| Pcdhαc2 is required for axonal tiling and assembly of serotonergic circuitries in mice. | Chen WV, Nwakeze CL, Denny CA, O'Keeffe S, Rieger MA, Mountoufaris G, Kirner A, Dougherty JD, Hen R, Wu Q, Maniatis T | Science (New York, N.Y.) | 28450636 | Science | 2017 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/28450636 |
| Single-cell topological RNA-seq analysis reveals insights into cellular differentiation and development. | Rizvi AH, Camara PG, Kandror EK, Roberts TJ, Schieren I, Maniatis T, Rabadan R | Nature biotechnology | 28459448 | Nat Biotechnol | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28459448 |
| Axonal transport of TDP-43 mRNA granules is impaired by ALS-causing mutations. | Alami NH, Smith RB, Carrasco MA, Williams LA, Winborn CS, Han SSW, Kiskinis E, Winborn B, Freibaum BD, Kanagaraj A, Clare AJ, Badders NM, Bilican B, Chaum E, Chandran S, Shaw CE, Eggan KC, Maniatis T, Taylor JP | Neuron | 24507191 | Neuron | 2014 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/24507191 |
| Chronic in vivo imaging in the mouse spinal cord using an implanted chamber. | Farrar MJ, Bernstein IM, Schlafer DH, Cleland TA, Fetcho JR, Schaffer CB | Nature methods | 22266542 | Nat Methods | 2012 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/22266542 |
| Entrainment of Arteriole Vasomotor Fluctuations by Neural Activity Is a Basis of Blood-Oxygenation-Level-Dependent "Resting-State" Connectivity. | Mateo C, Knutsen PM, Tsai PS, Shih AY, Kleinfeld D | Neuron | 29107517 | Neuron | 2017 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/29107517 |
| Activation and measurement of free whisking in the lightly anesthetized rodent. | Moore JD, Deschênes M, Kurnikova A, Kleinfeld D | Nature protocols | 24992095 | Nat Protoc | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24992095 |
| Neurovascular and Immuno-Imaging: From Mechanisms to Therapies. Proceedings of the Inaugural Symposium. | Akassoglou K, Agalliu D, Chang CJ, Davalos D, Grutzendler J, Hillman EM, Khakh BS, Kleinfeld D, McGavern DB, Nelson SJ, Zlokovic BV | Frontiers in neuroscience | 26941593 | Front Neurosci | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26941593 |
| Cell type specificity of neurovascular coupling in cerebral cortex. | Uhlirova H, Kılıç K, Tian P, Thunemann M, Desjardins M, Saisan PA, Sakadžić S, Ness TV, Mateo C, Cheng Q, Weldy KL, Razoux F, Vandenberghe M, Cremonesi JA, Ferri CG, Nizar K, Sridhar VB, Steed TC, Abashin M, Fainman Y, Masliah E, Djurovic S, Andreassen OA, Silva GA, Boas DA, Kleinfeld D, Buxton RB, Einevoll GT, Dale AM, Devor A | eLife | 27244241 | Elife | 2016 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/27244241 |
| A neuroimmune circuit mediates cancer cachexia-associated apathy. | Zhu XA, Starosta S, Ferrer M, Hou J, Chevy Q, Lucantonio F, Muñoz-Castañeda R, Zhang F, Zang K, Zhao X, Fiocchi FR, Bergstrom M, Siebels AA, Upin T, Wulf M, Evans S, Kravitz AV, Osten P, Janowitz T, Pignatelli M, Kepecs A | Science (New York, N.Y.) | 40208971 | Science | 2025 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/40208971 |
| Heightened lateral habenula activity during stress produces brainwide and behavioral substrates of susceptibility. | Zhukovskaya A, Zimmerman CA, Willmore L, Pan-Vazquez A, Janarthanan SR, Lynch LA, Falkner AL, Witten IB | Neuron | 39393349 | Neuron | 2024 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/39393349 |
| Pre-existing visual responses in a projection-defined dopamine population explain individual learning trajectories. | Pan-Vazquez A, Sanchez Araujo Y, McMannon B, Louka M, Bandi A, Haetzel L, Faulkner M, International Brain Laboratory, Pillow JW, Daw ND, Witten IB | Current biology : CB | 39413788 | Curr Biol | 2024 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/39413788 |
| A neural mechanism for learning from delayed postingestive feedback. | Zimmerman CA, Bolkan SS, Pan-Vazquez A, Wu B, Keppler EF, Meares-Garcia JB, Guthman EM, Fetcho RN, McMannon B, Lee J, Hoag AT, Lynch LA, Janarthanan SR, López Luna JF, Bondy AG, Falkner AL, Wang SS, Witten IB | bioRxiv : the preprint server for biology | 37873112 | bioRxiv | 2024 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/37873112 |
| A neural mechanism for learning from delayed postingestive feedback. | Zimmerman CA, Bolkan SS, Pan-Vazquez A, Wu B, Keppler EF, Meares-Garcia JB, Guthman EM, Fetcho RN, McMannon B, Lee J, Hoag AT, Lynch LA, Janarthanan SR, López Luna JF, Bondy AG, Falkner AL, Wang SS, Witten IB | Nature | 40175547 | Nature | 2025 Jun | https://www.ncbi.nlm.nih.gov/pubmed/40175547 |
| Synaptic editing of frontostriatal circuitry prevents excessive grooming in SAPAP3-deficient mice. | Walder-Christensen KK, Soliman HA, Calakos N, Dzirasa K | bioRxiv : the preprint server for biology | 40196561 | bioRxiv | 2025 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/40196561 |
| B cell stimulation changes the structure and higher-order organization of the inactive X chromosome. | Sierra I, Toothacre NE, van der Weide RH, Lovell CD, Nguyen SC, Barnett RJ, Cook AL, Ryu HS, Pyfrom S, Wang H, Beiting D, Philips-Cremins JE, Joyce EF, Anguera MC | Cell reports | 40014450 | Cell Rep | 2025 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/40014450 |
| MASTR-seq: Multiplexed Analysis of Short Tandem Repeats with sequencing. | Su C, Chandradoss KR, Malachowski T, Boya R, Ryu HS, Brennand KJ, Phillips-Cremins JE | bioRxiv : the preprint server for biology | 38746155 | bioRxiv | 2024 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/38746155 |
| Mosaic H3K9me3 at BREACHes predicts synaptic gene expression associated with fragile X syndrome cognitive severity. | Pham K, Malachowski T, Zhou L, Kim JH, Su C, Phillips-Cremins JE | bioRxiv : the preprint server for biology | 40166285 | bioRxiv | 2025 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/40166285 |
| FISHnet: detecting chromatin domains in single-cell sequential Oligopaints imaging data. | Patel R, Pham K, Chandrashekar H, Phillips-Cremins JE | Nature methods | 40355724 | Nat Methods | 2025 Jun | https://www.ncbi.nlm.nih.gov/pubmed/40355724 |
| 3D genome, on repeat: Higher-order folding principles of the heterochromatinized repetitive genome. | Haws SA, Simandi Z, Barnett RJ, Phillips-Cremins JE | Cell | 35868274 | Cell | 2022 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/35868274 |
| Schizophrenia-associated somatic copy-number variants from 12,834 cases reveal recurrent NRXN1 and ABCB11 disruptions. | Maury EA, Sherman MA, Genovese G, Gilgenast TG, Kamath T, Burris SJ, Rajarajan P, Flaherty E, Akbarian S, Chess A, McCarroll SA, Loh PR, Phillips-Cremins JE, Brennand KJ, Macosko EZ, Walters JTR, O'Donovan M, Sullivan P, Psychiatric Genomic Consortium Schizophrenia and CNV workgroup, Brain Somatic Mosaicism Network, Sebat J, Lee EA, Walsh CA | Cell genomics | 37601975 | Cell Genom | 2023 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/37601975 |
| Spatially coordinated heterochromatinization of long synaptic genes in fragile X syndrome. | Malachowski T, Chandradoss KR, Boya R, Zhou L, Cook AL, Su C, Pham K, Haws SA, Kim JH, Ryu HS, Ge C, Luppino JM, Nguyen SC, Titus KR, Gong W, Wallace O, Joyce EF, Wu H, Rojas LA, Phillips-Cremins JE | Cell | 38134876 | Cell | 2023 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/38134876 |
| A multi-looping chromatin signature predicts dysregulated gene expression in neurons with familial Alzheimer's disease mutations. | Chandrashekar H, Simandi Z, Choi H, Ryu HS, Waldman AJ, Nikish A, Muppidi SS, Gong W, Paquet D, Phillips-Cremins JE | bioRxiv : the preprint server for biology | 38463966 | bioRxiv | 2024 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/38463966 |
| FISHnet: Detecting chromatin domains in single-cell sequential Oligopaints imaging data. | Patel R, Pham K, Chandrashekar H, Phillips-Cremins JE | bioRxiv : the preprint server for biology | 38948824 | bioRxiv | 2024 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/38948824 |
| Chromatin domain alterations linked to 3D genome organization in a large cohort of schizophrenia and bipolar disorder brains. | Girdhar K, Hoffman GE, Bendl J, Rahman S, Dong P, Liao W, Hauberg ME, Sloofman L, Brown L, Devillers O, Kassim BS, Wiseman JR, Park R, Zharovsky E, Jacobov R, Flatow E, Kozlenkov A, Gilgenast T, Johnson JS, Couto L, Peters MA, Phillips-Cremins JE, Hahn CG, Gur RE, Tamminga CA, Lewis DA, Haroutunian V, PsychENCODE Consortium, Dracheva S, Lipska BK, Marenco S, Kundakovic M, Fullard JF, Jiang Y, Roussos P, Akbarian S | Nature neuroscience | 35332326 | Nat Neurosci | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/35332326 |
| Cohesin-mediated loop anchors confine the locations of human replication origins. | Emerson DJ, Zhao PA, Cook AL, Barnett RJ, Klein KN, Saulebekova D, Ge C, Zhou L, Simandi Z, Minsk MK, Titus KR, Wang W, Gong W, Zhang D, Yang L, Venev SV, Gibcus JH, Yang H, Sasaki T, Kanemaki MT, Yue F, Dekker J, Chen CL, Gilbert DM, Phillips-Cremins JE | Nature | 35676475 | Nature | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35676475 |
| Cohesin-dependence of neuronal gene expression relates to chromatin loop length. | Calderon L, Weiss FD, Beagan JA, Oliveira MS, Georgieva R, Wang YF, Carroll TS, Dharmalingam G, Gong W, Tossell K, de Paola V, Whilding C, Ungless MA, Fisher AG, Phillips-Cremins JE, Merkenschlager M | eLife | 35471149 | Elife | 2022 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/35471149 |
| G-quadruplexes associated with R-loops promote CTCF binding. | Wulfridge P, Yan Q, Rell N, Doherty J, Jacobson S, Offley S, Deliard S, Feng K, Phillips-Cremins JE, Gardini A, Sarma K | Molecular cell | 37552993 | Mol Cell | 2023 Sep 7 | https://www.ncbi.nlm.nih.gov/pubmed/37552993 |
| Cell type-specific loops linked to RNA polymerase II elongation in human neural differentiation. | Titus KR, Simandi Z, Chandrashekar H, Paquet D, Phillips-Cremins JE | bioRxiv : the preprint server for biology | 38106199 | bioRxiv | 2023 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/38106199 |
| Polygenic burden of short tandem repeat expansions promote risk for Alzheimer's disease. | Guo MH, Lee WP, Vardarajan B, Schellenberg GD, Phillips-Cremins J | medRxiv : the preprint server for health sciences | 38014121 | medRxiv | 2023 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/38014121 |
| Autism spectrum disorder risk genes have convergent effects on transcription and neuronal firing patterns in primary neurons. | Paranjapye A, Ahmad R, Su S, Waldman AJ, Philips-Cremins J, Zhang S, Korb E | bioRxiv : the preprint server for biology | 40196547 | bioRxiv | 2025 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/40196547 |
| Cortico-thalamic communication for action coordination in a skilled motor sequence. | Li Y, An X, Mulcahey PJ, Qian Y, Xu XH, Zhao S, Mohan H, Suryanarayana SM, Bachschmid-Romano L, Brunel N, Whishaw IQ, Huang ZJ | bioRxiv : the preprint server for biology | 37961483 | bioRxiv | 2024 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/37961483 |
| The progenitor basis of cortical projection neuron diversity. | Huilgol D, Russ JB, Srivas S, Huang ZJ | Current opinion in neurobiology | 37148649 | Curr Opin Neurobiol | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37148649 |
| Direct and indirect neurogenesis generate a mosaic of distinct glutamatergic projection neuron types in cerebral cortex. | Huilgol D, Levine JM, Galbavy W, Wang BS, He M, Suryanarayana SM, Huang ZJ | Neuron | 37348506 | Neuron | 2023 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/37348506 |
| Specific and comprehensive genetic targeting reveals brain-wide distribution and synaptic input patterns of GABAergic axo-axonic interneurons. | Raudales R, Kim G, Kelly SM, Hatfield J, Guan W, Zhao S, Paul A, Qian Y, Li B, Huang ZJ | bioRxiv : the preprint server for biology | 37986757 | bioRxiv | 2024 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/37986757 |
| Programmable RNA sensing for cell monitoring and manipulation. | Qian Y, Li J, Zhao S, Matthews EA, Adoff M, Zhong W, An X, Yeo M, Park C, Yang X, Wang BS, Southwell DG, Huang ZJ | Nature | 36198803 | Nature | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36198803 |
| Cortical glutamatergic projection neuron types contribute to distinct functional subnetworks. | Mohan H, An X, Xu XH, Kondo H, Zhao S, Matho KS, Wang BS, Musall S, Mitra P, Huang ZJ | Nature neuroscience | 36690901 | Nat Neurosci | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36690901 |
| Specific and comprehensive genetic targeting reveals brain-wide distribution and synaptic input patterns of GABAergic axo-axonic interneurons. | Raudales R, Kim G, Kelly SM, Hatfield J, Guan W, Zhao S, Paul A, Qian Y, Li B, Huang ZJ | eLife | 39012795 | Elife | 2024 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/39012795 |
| RNA-programmable cell type monitoring and manipulation in the human cortex with CellREADR. | Matthews EA, Russ JB, Qian Y, Zhao S, Thompson P, Methani M, Vestal ML, Huang ZJ, Southwell DG | bioRxiv : the preprint server for biology | 39677799 | bioRxiv | 2025 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/39677799 |
| Cortical responses to touch reflect subcortical integration of LTMR signals. | Emanuel AJ, Lehnert BP, Panzeri S, Harvey CD, Ginty DD | Nature | 34789880 | Nature | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34789880 |
| Fos ensembles encode and shape stable spatial maps in the hippocampus. | Pettit NL, Yap EL, Greenberg ME, Harvey CD | Nature | 36002569 | Nature | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36002569 |
| Mechanoreceptor synapses in the brainstem shape the central representation of touch. | Lehnert BP, Santiago C, Huey EL, Emanuel AJ, Renauld S, Africawala N, Alkislar I, Zheng Y, Bai L, Koutsioumpa C, Hong JT, Magee AR, Harvey CD, Ginty DD | Cell | 34637701 | Cell | 2021 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/34637701 |
| DeepEthogram, a machine learning pipeline for supervised behavior classification from raw pixels. | Bohnslav JP, Wimalasena NK, Clausing KJ, Dai YY, Yarmolinsky DA, Cruz T, Kashlan AD, Chiappe ME, Orefice LL, Woolf CJ, Harvey CD | eLife | 34473051 | Elife | 2021 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/34473051 |
| The structures and functions of correlations in neural population codes. | Panzeri S, Moroni M, Safaai H, Harvey CD | Nature reviews. Neuroscience | 35732917 | Nat Rev Neurosci | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35732917 |
| Cognitive experience alters cortical involvement in goal-directed navigation. | Arlt C, Barroso-Luque R, Kira S, Bruno CA, Xia N, Chettih SN, Soares S, Pettit NL, Harvey CD | eLife | 35735909 | Elife | 2022 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/35735909 |
| Synaptic wiring motifs in posterior parietal cortex support decision-making. | Kuan AT, Bondanelli G, Driscoll LN, Han J, Kim M, Hildebrand DGC, Graham BJ, Wilson DE, Thomas LA, Panzeri S, Harvey CD, Lee WA | Nature | 38383788 | Nature | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38383788 |
| Specialized structure of neural population codes in parietal cortex outputs. | Safaai H, Wang AY, Kira S, Malerba SB, Panzeri S, Harvey CD | bioRxiv : the preprint server for biology | 37662297 | bioRxiv | 2023 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/37662297 |
| Mechanoreceptor signal convergence and transformation in the dorsal horn flexibly shape a diversity of outputs to the brain. | Chirila AM, Rankin G, Tseng SY, Emanuel AJ, Chavez-Martinez CL, Zhang D, Harvey CD, Ginty DD | Cell | 36334588 | Cell | 2022 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/36334588 |
| ArMo: An Articulated Mesh Approach for Mouse 3D Reconstruction. | Bohnslav JP, Osman MAM, Jaggi A, Soares S, Weinreb C, Datta SR, Harvey CD | bioRxiv : the preprint server for biology | 36824774 | bioRxiv | 2023 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/36824774 |
| Shared and specialized coding across posterior cortical areas for dynamic navigation decisions. | Tseng SY, Chettih SN, Arlt C, Barroso-Luque R, Harvey CD | Neuron | 35679861 | Neuron | 2022 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/35679861 |
| Hippocampal place codes are gated by behavioral engagement. | Pettit NL, Yuan XC, Harvey CD | Nature neuroscience | 35449355 | Nat Neurosci | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35449355 |
| Representational drift: Emerging theories for continual learning and experimental future directions. | Driscoll LN, Duncker L, Harvey CD | Current opinion in neurobiology | 35939861 | Curr Opin Neurobiol | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/35939861 |
| A distributed and efficient population code of mixed selectivity neurons for flexible navigation decisions. | Kira S, Safaai H, Morcos AS, Panzeri S, Harvey CD | Nature communications | 37055431 | Nat Commun | 2023 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/37055431 |
| A cell-type-specific error-correction signal in the posterior parietal cortex. | Green J, Bruno CA, Traunmüller L, Ding J, Hrvatin S, Wilson DE, Khodadad T, Samuels J, Greenberg ME, Harvey CD | Nature | 37468637 | Nature | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37468637 |
| Environmental Enrichment Sharpens Sensory Acuity by Enhancing Information Coding in Barrel Cortex and Premotor Cortex. | Zheng HJV, Meagher JP, Xu D, Patel YA, O'Connor DH, Kwon HB | eNeuro | 33893166 | eNeuro | 2021 May-Jun | https://www.ncbi.nlm.nih.gov/pubmed/33893166 |
| Dysregulation of the mesoprefrontal dopamine circuit mediates an early-life stress-induced synaptic imbalance in the prefrontal cortex. | Oh WC, Rodríguez G, Asede D, Jung K, Hwang IW, Ogelman R, Bolton MM, Kwon HB | Cell reports | 33951422 | Cell Rep | 2021 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/33951422 |
| Cutting-edge methodologies for tagging and tracing active neuronal coding in the brain. | Nagahama K, Jung VH, Kwon HB | Current opinion in neurobiology | 40056794 | Curr Opin Neurobiol | 2025 Jun | https://www.ncbi.nlm.nih.gov/pubmed/40056794 |
| Intercellular communication in the brain via dendritic nanotubular network. | Chang M, Krüssel S, Parajuli LK, Kim J, Lee D, Merodio A, Kwon J, Okabe S, Kwon HB | bioRxiv : the preprint server for biology | 40475405 | bioRxiv | 2025 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/40475405 |
| IgSF11 homophilic adhesion proteins promote layer-specific synaptic assembly of the cortical interneuron subtype. | Hayano Y, Ishino Y, Hyun JH, Orozco CG, Steinecke A, Potts E, Oisi Y, Thomas CI, Guerrero-Given D, Kim E, Kwon HB, Kamasawa N, Taniguchi H | Science advances | 34261648 | Sci Adv | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34261648 |
| Current and future techniques for detecting oxytocin: Focusing on genetically-encoded GPCR sensors. | Lee D, Kwon HB | Journal of neuroscience methods | 34763021 | J Neurosci Methods | 2022 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/34763021 |
| Sleep and circadian rhythm disruption by NPTX2 loss of function. | Roh SE, Xiao M, Delgado A, Kwak C, Savonenko A, Bakker A, Kwon HB, Worley P | bioRxiv : the preprint server for biology | 37808783 | bioRxiv | 2023 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/37808783 |
| Exuberant de novo dendritic spine growth in mature neurons. | Krüssel S, Deb I, Son S, Ewall G, Chang M, Lee HK, do Heo W, Kwon HB | bioRxiv : the preprint server for biology | 37546796 | bioRxiv | 2023 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/37546796 |
| Dopamine-mediated formation of a memory module in the nucleus accumbens for goal-directed navigation. | Jung K, Krüssel S, Yoo S, An M, Burke B, Schappaugh N, Choi Y, Gu Z, Blackshaw S, Costa RM, Kwon HB | Nature neuroscience | 39333785 | Nat Neurosci | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39333785 |
| Intersectional monosynaptic tracing for dissecting subtype-specific organization of GABAergic interneuron inputs. | Yetman MJ, Washburn E, Hyun JH, Osakada F, Hayano Y, Zeng H, Callaway EM, Kwon HB, Taniguchi H | Nature neuroscience | 30692688 | Nat Neurosci | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30692688 |
| Neural circuitry for maternal oxytocin release induced by infant cries. | Valtcheva S, Issa HA, Bair-Marshall CJ, Martin KA, Jung K, Zhang Y, Kwon HB, Froemke RC | Nature | 37730989 | Nature | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37730989 |
| An adaptive behavioral control motif mediated by cortical axo-axonic inhibition. | Jung K, Chang M, Steinecke A, Burke B, Choi Y, Oisi Y, Fitzpatrick D, Taniguchi H, Kwon HB | Nature neuroscience | 37474640 | Nat Neurosci | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37474640 |
| Formation of cellular close-ended tunneling nanotubes through mechanical deformation. | Chang M, Lee OC, Bu G, Oh J, Yunn NO, Ryu SH, Kwon HB, Kolomeisky AB, Shim SH, Doh J, Jeon JH, Lee JB | Science advances | 35353579 | Sci Adv | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/35353579 |
| Tagging active neurons by soma-targeted Cal-Light. | Hyun JH, Nagahama K, Namkung H, Mignocchi N, Roh SE, Hannan P, Krüssel S, Kwak C, McElroy A, Liu B, Cui M, Lee S, Lee D, Huganir RL, Worley PF, Sawa A, Kwon HB | Nature communications | 36509775 | Nat Commun | 2022 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/36509775 |
| H-Ras induces exuberant de novo dendritic protrusion growth in mature neurons regardless of cell type. | Krüssel S, Deb I, Son S, Ewall G, Chang M, Lee HK, Heo WD, Kwon HB | iScience | 39220408 | iScience | 2024 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/39220408 |
| Intensiometric biosensors visualize the activity of multiple small GTPases in vivo. | Kim J, Lee S, Jung K, Oh WC, Kim N, Son S, Jo Y, Kwon HB, Heo WD | Nature communications | 30643148 | Nat Commun | 2019 Jan 14 | https://www.ncbi.nlm.nih.gov/pubmed/30643148 |
| An adaptive behavioral control motif mediated by cortical axo-axonic inhibition. | Jung K, Chang M, Steinecke A, Berke B, Choi Y, Oisi Y, Fitzpatrick D, Taniguchi H, Kwon HB | bioRxiv : the preprint server for biology | 36945592 | bioRxiv | 2023 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/36945592 |
| Identification of psychiatric disorder subtypes from functional connectivity patterns in resting-state electroencephalography. | Zhang Y, Wu W, Toll RT, Naparstek S, Maron-Katz A, Watts M, Gordon J, Jeong J, Astolfi L, Shpigel E, Longwell P, Sarhadi K, El-Said D, Li Y, Cooper C, Chin-Fatt C, Arns M, Goodkind MS, Trivedi MH, Marmar CR, Etkin A | Nature biomedical engineering | 33077939 | Nat Biomed Eng | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33077939 |
| Cortical Connectivity Moderators of Antidepressant vs Placebo Treatment Response in Major Depressive Disorder: Secondary Analysis of a Randomized Clinical Trial. | Rolle CE, Fonzo GA, Wu W, Toll R, Jha MK, Cooper C, Chin-Fatt C, Pizzagalli DA, Trombello JM, Deckersbach T, Fava M, Weissman MM, Trivedi MH, Etkin A | JAMA psychiatry | 31895437 | JAMA Psychiatry | 2020 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/31895437 |
| Global connectivity and local excitability changes underlie antidepressant effects of repetitive transcranial magnetic stimulation. | Eshel N, Keller CJ, Wu W, Jiang J, Mills-Finnerty C, Huemer J, Wright R, Fonzo GA, Ichikawa N, Carreon D, Wong M, Yee A, Shpigel E, Guo Y, McTeague L, Maron-Katz A, Etkin A | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 32053828 | Neuropsychopharmacology | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32053828 |
| The Role of the Dorsal-Lateral Prefrontal Cortex in Reward Sensitivity During Approach-Avoidance Conflict. | Rolle CE, Pedersen ML, Johnson N, Amemori KI, Ironside M, Graybiel AM, Pizzagalli DA, Etkin A | Cerebral cortex (New York, N.Y. : 1991) | 34464445 | Cereb Cortex | 2022 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/34464445 |
| Individual Deviations from Normative Electroencephalographic Connectivity Predict Antidepressant Response. | Tong X, Xie H, Wu W, Keller C, Fonzo G, Chidharom M, Carlisle N, Etkin A, Zhang Y | medRxiv : the preprint server for health sciences | 37292874 | medRxiv | 2023 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/37292874 |
| Towards objective definition of psychopathology in post-traumatic stress disorder. | Etkin A | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 31488889 | Neuropsychopharmacology | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31488889 |
| Individualized fMRI connectivity defines signatures of antidepressant and placebo responses in major depression. | Zhao K, Xie H, Fonzo GA, Tong X, Carlisle N, Chidharom M, Etkin A, Zhang Y | Molecular psychiatry | 36732585 | Mol Psychiatry | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/36732585 |
| Densely sampled stimulus-response map of human cortex with single pulse TMS-EEG and its relation to whole brain neuroimaging measures. | Sun Y, Lucas MV, Cline CC, Menezes MC, Kim S, Badami FS, Narayan M, Wu W, Daskalakis ZJ, Etkin A, Saggar M | bioRxiv : the preprint server for biology | 38948696 | bioRxiv | 2024 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/38948696 |
| An electroencephalographic signature predicts antidepressant response in major depression. | Wu W, Zhang Y, Jiang J, Lucas MV, Fonzo GA, Rolle CE, Cooper C, Chin-Fatt C, Krepel N, Cornelssen CA, Wright R, Toll RT, Trivedi HM, Monuszko K, Caudle TL, Sarhadi K, Jha MK, Trombello JM, Deckersbach T, Adams P, McGrath PJ, Weissman MM, Fava M, Pizzagalli DA, Arns M, Trivedi MH, Etkin A | Nature biotechnology | 32042166 | Nat Biotechnol | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32042166 |
| Identification of Common Neural Circuit Disruptions in Emotional Processing Across Psychiatric Disorders. | McTeague LM, Rosenberg BM, Lopez JW, Carreon DM, Huemer J, Jiang Y, Chick CF, Eickhoff SB, Etkin A | The American journal of psychiatry | 31964160 | Am J Psychiatry | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/31964160 |
| Opportunities for use of neuroimaging in de-risking drug development and improving clinical outcomes in psychiatry: an industry perspective. | Etkin A, Powell J, Savitz AJ | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 39169213 | Neuropsychopharmacology | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39169213 |
| A data-driven framework for mapping domains of human neurobiology. | Beam E, Potts C, Poldrack RA, Etkin A | Nature neuroscience | 34764476 | Nat Neurosci | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34764476 |
| Discriminative functional connectivity signature of cocaine use disorder links to rTMS treatment response. | Zhao K, Fonzo GA, Xie H, Oathes DJ, Keller CJ, Carlisle NB, Etkin A, Garza-Villarreal EA, Zhang Y | Nature. Mental health | 39279909 | Nat Ment Health | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/39279909 |
| Individual deviations from normative electroencephalographic connectivity predict antidepressant response. | Tong X, Xie H, Wu W, Keller CJ, Fonzo GA, Chidharom M, Carlisle NB, Etkin A, Zhang Y | Journal of affective disorders | 38281595 | J Affect Disord | 2024 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/38281595 |
| A generalizable functional connectivity signature characterizes brain dysfunction and links to rTMS treatment response in cocaine use disorder. | Zhao K, Fonzo GA, Xie H, Oathes DJ, Keller CJ, Carlisle N, Etkin A, Garza-Villarreal EA, Zhang Y | medRxiv : the preprint server for health sciences | 37162878 | medRxiv | 2023 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/37162878 |
| Neural circuitry of social learning in Drosophila requires multiple inputs to facilitate inter-species communication. | Kacsoh BZ, Bozler J, Hodge S, Bosco G | Communications biology | 31428697 | Commun Biol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31428697 |
| The Photoconvertible Fluorescent Probe, CaMPARI, Labels Active Neurons in Freely-Moving Intact Adult Fruit Flies. | Edwards KA, Hoppa MB, Bosco G | Frontiers in neural circuits | 32457580 | Front Neural Circuits | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32457580 |
| New Drosophila Long-Term Memory Genes Revealed by Assessing Computational Function Prediction Methods. | Kacsoh BZ, Barton S, Jiang Y, Zhou N, Mooney SD, Friedberg I, Radivojac P, Greene CS, Bosco G | G3 (Bethesda, Md.) | 30463884 | G3 (Bethesda) | 2019 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/30463884 |
| Neuropeptide F signaling regulates parasitoid-specific germline development and egg-laying in Drosophila. | Sadanandappa MK, Sathyanarayana SH, Kondo S, Bosco G | PLoS genetics | 33770070 | PLoS Genet | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33770070 |
| Condensins exert force on chromatin-nuclear envelope tethers to mediate nucleoplasmic reticulum formation in Drosophila melanogaster. | Bozler J, Nguyen HQ, Rogers GC, Bosco G | G3 (Bethesda, Md.) | 25552604 | G3 (Bethesda) | 2014 Dec 30 | https://www.ncbi.nlm.nih.gov/pubmed/25552604 |
| A systems level approach to temporal expression dynamics in Drosophila reveals clusters of long term memory genes. | Bozler J, Kacsoh BZ, Chen H, Theurkauf WE, Weng Z, Bosco G | PLoS genetics | 29084214 | PLoS Genet | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/29084214 |
| Transgeneratonal inheritance of ethanol preference is caused by maternal NPF repression. | Bozler J, Kacsoh BZ, Bosco G | eLife | 31287057 | Elife | 2019 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/31287057 |
| Correction: Drosophila species learn dialects through communal living. | Kacsoh BZ, Bozler J, Bosco G | PLoS genetics | 30481167 | PLoS Genet | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30481167 |
| Machine Learning Analysis Identifies Drosophila Grunge/Atrophin as an Important Learning and Memory Gene Required for Memory Retention and Social Learning. | Kacsoh BZ, Greene CS, Bosco G | G3 (Bethesda, Md.) | 28889104 | G3 (Bethesda) | 2017 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/28889104 |
| Maternal Priming of Offspring Immune System in Drosophila. | Bozler J, Kacsoh BZ, Bosco G | G3 (Bethesda, Md.) | 31685524 | G3 (Bethesda) | 2020 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/31685524 |
| Olfactory inputs regulate Drosophila melanogaster oogenesis. | Sadanandappa MK, Bosco G | The Journal of experimental biology | 39660407 | J Exp Biol | 2024 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/39660407 |
| Drosophila species learn dialects through communal living. | Kacsoh BZ, Bozler J, Bosco G | PLoS genetics | 30024883 | PLoS Genet | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30024883 |
| A novel paradigm for nonassociative long-term memory in Drosophila: predator-induced changes in oviposition behavior. | Kacsoh BZ, Bozler J, Hodge S, Ramaswami M, Bosco G | Genetics | 25633088 | Genetics | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25633088 |
| Social communication of predator-induced changes in Drosophila behavior and germ line physiology. | Kacsoh BZ, Bozler J, Ramaswami M, Bosco G | eLife | 25970035 | Elife | 2015 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/25970035 |
| Nematocytes: Discovery and characterization of a novel anculeate hemocyte in Drosophila falleni and Drosophila phalerata. | Bozler J, Kacsoh BZ, Bosco G | PloS one | 29141015 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29141015 |
| Parasitoid cues modulate Drosophila germline development and stem cell proliferation. | Sadanandappa MK, Bosco G | Cell reports | 38175752 | Cell Rep | 2024 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/38175752 |
| Protocol for studying parasitoid-induced long-term effects in Drosophila. | Sadanandappa MK, Bosco G | STAR protocols | 39499614 | STAR Protoc | 2024 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/39499614 |
| Cutting, Amplifying, and Aligning Microtubules with Severing Enzymes. | Kuo YW, Howard J | Trends in cell biology | 33183955 | Trends Cell Biol | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33183955 |
| Physical bioenergetics: Energy fluxes, budgets, and constraints in cells. | Yang X, Heinemann M, Howard J, Huber G, Iyer-Biswas S, Le Treut G, Lynch M, Montooth KL, Needleman DJ, Pigolotti S, Rodenfels J, Ronceray P, Shankar S, Tavassoly I, Thutupalli S, Titov DV, Wang J, Foster PJ | Proceedings of the National Academy of Sciences of the United States of America | 34140336 | Proc Natl Acad Sci U S A | 2021 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/34140336 |
| The narrowing of dendrite branches across nodes follows a well-defined scaling law. | Liao M, Liang X, Howard J | Proceedings of the National Academy of Sciences of the United States of America | 34215693 | Proc Natl Acad Sci U S A | 2021 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/34215693 |
| Nicotinamide adenine dinucleotides and their precursor NMN have no direct effect on microtubule dynamics in purified brain tubulin. | Luchniak A, Mahamdeh M, Howard J | PloS one | 31393939 | PLoS One | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31393939 |
| In Vitro Reconstitution of Microtubule Dynamics and Severing Imaged by Label-Free Interference-Reflection Microscopy. | Kuo YW, Howard J | Methods in molecular biology (Clifton, N.J.) | 35476326 | Methods Mol Biol | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35476326 |
| Protocol for Imaging the Same Class IV Neurons at Different Stages of Development. | Shree S, Howard J | Bio-protocol | 39210953 | Bio Protoc | 2024 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/39210953 |
| Predicted Effects of Severing Enzymes on the Length Distribution and Total Mass of Microtubules. | Kuo YW, Trottier O, Howard J | Biophysical journal | 31708162 | Biophys J | 2019 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/31708162 |
| Structural Biology: Piezo Senses Tension through Curvature. | Liang X, Howard J | Current biology : CB | 29689211 | Curr Biol | 2018 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/29689211 |
| Spastin is a dual-function enzyme that severs microtubules and promotes their regrowth to increase the number and mass of microtubules. | Kuo YW, Trottier O, Mahamdeh M, Howard J | Proceedings of the National Academy of Sciences of the United States of America | 30837315 | Proc Natl Acad Sci U S A | 2019 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/30837315 |
| Focal laser stimulation of fly nociceptors activates distinct axonal and dendritic Ca(2+) signals. | Basak R, Sutradhar S, Howard J | Biophysical journal | 34175294 | Biophys J | 2021 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/34175294 |
| Dynamic instability of dendrite tips generates the highly branched morphologies of sensory neurons. | Shree S, Sutradhar S, Trottier O, Tu Y, Liang X, Howard J | Science advances | 35767611 | Sci Adv | 2022 Jul | https://www.ncbi.nlm.nih.gov/pubmed/35767611 |
| Diversity of astrocyte functions and phenotypes in neural circuits. | Khakh BS, Sofroniew MV | Nature neuroscience | 26108722 | Nat Neurosci | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26108722 |
| Transient, Consequential Increases in Extracellular Potassium Ions Accompany Channelrhodopsin2 Excitation. | Octeau JC, Gangwani MR, Allam SL, Tran D, Huang S, Hoang-Trong TM, Golshani P, Rumbell TH, Kozloski JR, Khakh BS | Cell reports | 31116972 | Cell Rep | 2019 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/31116972 |
| New Transgenic Mouse Lines for Selectively Targeting Astrocytes and Studying Calcium Signals in Astrocyte Processes In Situ and In Vivo. | Srinivasan R, Lu TY, Chai H, Xu J, Huang BS, Golshani P, Coppola G, Khakh BS | Neuron | 27939582 | Neuron | 2016 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/27939582 |
| Making, Testing, and Using Potassium Ion Selective Microelectrodes in Tissue Slices of Adult Brain. | Octeau JC, Faas G, Mody I, Khakh BS | Journal of visualized experiments : JoVE | 29781998 | J Vis Exp | 2018 May 7 | https://www.ncbi.nlm.nih.gov/pubmed/29781998 |
| Imaging intracellular Ca²⁺ signals in striatal astrocytes from adult mice using genetically-encoded calcium indicators. | Jiang R, Haustein MD, Sofroniew MV, Khakh BS | Journal of visualized experiments : JoVE | 25490346 | J Vis Exp | 2014 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/25490346 |
| Astrocytes and Huntington's disease. | Khakh BS, Sofroniew MV | ACS chemical neuroscience | 24842291 | ACS Chem Neurosci | 2014 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/24842291 |
| Neural Circuit-Specialized Astrocytes: Transcriptomic, Proteomic, Morphological, and Functional Evidence. | Chai H, Diaz-Castro B, Shigetomi E, Monte E, Octeau JC, Yu X, Cohn W, Rajendran PS, Vondriska TM, Whitelegge JP, Coppola G, Khakh BS | Neuron | 28712653 | Neuron | 2017 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/28712653 |
| Astrocyte-Neuron Interactions in the Striatum: Insights on Identity, Form, and Function. | Khakh BS | Trends in neurosciences | 31351745 | Trends Neurosci | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31351745 |
| New Insights on Astrocyte Ion Channels: Critical for Homeostasis and Neuron-Glia Signaling. | Olsen ML, Khakh BS, Skatchkov SN, Zhou M, Lee CJ, Rouach N | The Journal of neuroscience : the official journal of the Society for Neuroscience | 26468182 | J Neurosci | 2015 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/26468182 |
| Astrocyte Kir4.1 ion channel deficits contribute to neuronal dysfunction in Huntington's disease model mice. | Tong X, Ao Y, Faas GC, Nwaobi SE, Xu J, Haustein MD, Anderson MA, Mody I, Olsen ML, Sofroniew MV, Khakh BS | Nature neuroscience | 24686787 | Nat Neurosci | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24686787 |
| Context-Specific Striatal Astrocyte Molecular Responses Are Phenotypically Exploitable. | Yu X, Nagai J, Marti-Solano M, Soto JS, Coppola G, Babu MM, Khakh BS | Neuron | 33086039 | Neuron | 2020 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/33086039 |
| Reducing Astrocyte Calcium Signaling In Vivo Alters Striatal Microcircuits and Causes Repetitive Behavior. | Yu X, Taylor AMW, Nagai J, Golshani P, Evans CJ, Coppola G, Khakh BS | Neuron | 30174118 | Neuron | 2018 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/30174118 |
| Conditions and constraints for astrocyte calcium signaling in the hippocampal mossy fiber pathway. | Haustein MD, Kracun S, Lu XH, Shih T, Jackson-Weaver O, Tong X, Xu J, Yang XW, O'Dell TJ, Marvin JS, Ellisman MH, Bushong EA, Looger LL, Khakh BS | Neuron | 24742463 | Neuron | 2014 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/24742463 |
| An Optical Neuron-Astrocyte Proximity Assay at Synaptic Distance Scales. | Octeau JC, Chai H, Jiang R, Bonanno SL, Martin KC, Khakh BS | Neuron | 29621490 | Neuron | 2018 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/29621490 |
| Unravelling and Exploiting Astrocyte Dysfunction in Huntington's Disease. | Khakh BS, Beaumont V, Cachope R, Munoz-Sanjuan I, Goldman SA, Grantyn R | Trends in neurosciences | 28578789 | Trends Neurosci | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28578789 |
| Dysfunctional Calcium and Glutamate Signaling in Striatal Astrocytes from Huntington's Disease Model Mice. | Jiang R, Diaz-Castro B, Looger LL, Khakh BS | The Journal of neuroscience : the official journal of the Society for Neuroscience | 27013675 | J Neurosci | 2016 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/27013675 |
| Astrocyte calcium signaling: from observations to functions and the challenges therein. | Khakh BS, McCarthy KD | Cold Spring Harbor perspectives in biology | 25605709 | Cold Spring Harb Perspect Biol | 2015 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/25605709 |
| Ca(2+) signaling in astrocytes from Ip3r2(-/-) mice in brain slices and during startle responses in vivo. | Srinivasan R, Huang BS, Venugopal S, Johnston AD, Chai H, Zeng H, Golshani P, Khakh BS | Nature neuroscience | 25894291 | Nat Neurosci | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25894291 |
| Probing the Complexities of Astrocyte Calcium Signaling. | Shigetomi E, Patel S, Khakh BS | Trends in cell biology | 26896246 | Trends Cell Biol | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26896246 |
| A genetically encoded single-wavelength sensor for imaging cytosolic and cell surface ATP. | Lobas MA, Tao R, Nagai J, Kronschläger MT, Borden PM, Marvin JS, Looger LL, Khakh BS | Nature communications | 30755613 | Nat Commun | 2019 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/30755613 |
| Breakdown of spatial coding and interneuron synchronization in epileptic mice. | Shuman T, Aharoni D, Cai DJ, Lee CR, Chavlis S, Page-Harley L, Vetere LM, Feng Y, Yang CY, Mollinedo-Gajate I, Chen L, Pennington ZT, Taxidis J, Flores SE, Cheng K, Javaherian M, Kaba CC, Rao N, La-Vu M, Pandi I, Shtrahman M, Bakhurin KI, Masmanidis SC, Khakh BS, Poirazi P, Silva AJ, Golshani P | Nature neuroscience | 31907437 | Nat Neurosci | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31907437 |
| Local and CNS-Wide Astrocyte Intracellular Calcium Signaling Attenuation In Vivo with CalEx(flox) Mice. | Yu X, Moye SL, Khakh BS | The Journal of neuroscience : the official journal of the Society for Neuroscience | 33903221 | J Neurosci | 2021 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/33903221 |
| Astrocyte scar formation aids central nervous system axon regeneration. | Anderson MA, Burda JE, Ren Y, Ao Y, O'Shea TM, Kawaguchi R, Coppola G, Khakh BS, Deming TJ, Sofroniew MV | Nature | 27027288 | Nature | 2016 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/27027288 |
| Hyperactivity with Disrupted Attention by Activation of an Astrocyte Synaptogenic Cue. | Nagai J, Rajbhandari AK, Gangwani MR, Hachisuka A, Coppola G, Masmanidis SC, Fanselow MS, Khakh BS | Cell | 31031006 | Cell | 2019 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/31031006 |
| Enhancing GAT-3 in thalamic astrocytes promotes resilience to brain injury in rodents. | Cho FS, Vainchtein ID, Voskobiynyk Y, Morningstar AR, Aparicio F, Higashikubo B, Ciesielska A, Broekaart DWM, Anink JJ, van Vliet EA, Yu X, Khakh BS, Aronica E, Molofsky AV, Paz JT | Science translational medicine | 35857628 | Sci Transl Med | 2022 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/35857628 |
| Capturing and Manipulating Activated Neuronal Ensembles with CANE Delineates a Hypothalamic Social-Fear Circuit. | Sakurai K, Zhao S, Takatoh J, Rodriguez E, Lu J, Leavitt AD, Fu M, Han BX, Wang F | Neuron | 27974160 | Neuron | 2016 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/27974160 |
| General anesthetics activate a potent central pain-suppression circuit in the amygdala. | Hua T, Chen B, Lu D, Sakurai K, Zhao S, Han BX, Kim J, Yin L, Chen Y, Lu J, Wang F | Nature neuroscience | 32424286 | Nat Neurosci | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32424286 |
| A craniofacial-specific monosynaptic circuit enables heightened affective pain. | Rodriguez E, Sakurai K, Xu J, Chen Y, Toda K, Zhao S, Han BX, Ryu D, Yin H, Liedtke W, Wang F | Nature neuroscience | 29184209 | Nat Neurosci | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29184209 |
| A mast cell-thermoregulatory neuron circuit axis regulates hypothermia in anaphylaxis. | Bao C, Chen O, Sheng H, Zhang J, Luo Y, Hayes BW, Liang H, Liedtke W, Ji RR, Abraham SN | Science immunology | 36930731 | Sci Immunol | 2023 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/36930731 |
| State-dependent architecture of thalamic reticular subnetworks. | Halassa MM, Chen Z, Wimmer RD, Brunetti PM, Zhao S, Zikopoulos B, Wang F, Brown EN, Wilson MA | Cell | 25126786 | Cell | 2014 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/25126786 |
| Presynaptic Inputs to Any CNS Projection Neuron Identified by Dual Recombinant Virus Infection. | Bráz JM, Wang F, Basbaum AI | PloS one | 26470056 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26470056 |
| MIN1PIPE: A Miniscope 1-Photon-Based Calcium Imaging Signal Extraction Pipeline. | Lu J, Li C, Singh-Alvarado J, Zhou ZC, Fröhlich F, Mooney R, Wang F | Cell reports | 29925007 | Cell Rep | 2018 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/29925007 |
| A Common Neuroendocrine Substrate for Diverse General Anesthetics and Sleep. | Jiang-Xie LF, Yin L, Zhao S, Prevosto V, Han BX, Dzirasa K, Wang F | Neuron | 31006556 | Neuron | 2019 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/31006556 |
| A Specialized Neural Circuit Gates Social Vocalizations in the Mouse. | Tschida K, Michael V, Takatoh J, Han BX, Zhao S, Sakurai K, Mooney R, Wang F | Neuron | 31204083 | Neuron | 2019 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/31204083 |
| The effects of aging on diurnal water intake and melatonin binding in the suprachiasmatic nucleus. | Whealin JM, Burwell RD, Gallagher M | Neuroscience letters | 8361631 | Neurosci Lett | 1993 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/8361631 |
| Optical control of mammalian endogenous transcription and epigenetic states. | Konermann S, Brigham MD, Trevino A, Hsu PD, Heidenreich M, Cong L, Platt RJ, Scott DA, Church GM, Zhang F | Nature | 23877069 | Nature | 2013 Aug 22 | https://www.ncbi.nlm.nih.gov/pubmed/23877069 |
| DNA targeting specificity of RNA-guided Cas9 nucleases. | Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine EJ, Wu X, Shalem O, Cradick TJ, Marraffini LA, Bao G, Zhang F | Nature biotechnology | 23873081 | Nat Biotechnol | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23873081 |
| RNA-guided editing of bacterial genomes using CRISPR-Cas systems. | Jiang W, Bikard D, Cox D, Zhang F, Marraffini LA | Nature biotechnology | 23360965 | Nat Biotechnol | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23360965 |
| Crystal Structure of Staphylococcus aureus Cas9. | Nishimasu H, Cong L, Yan WX, Ran FA, Zetsche B, Li Y, Kurabayashi A, Ishitani R, Zhang F, Nureki O | Cell | 26317473 | Cell | 2015 Aug 27 | https://www.ncbi.nlm.nih.gov/pubmed/26317473 |
| Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems. | Shmakov S, Abudayyeh OO, Makarova KS, Wolf YI, Gootenberg JS, Semenova E, Minakhin L, Joung J, Konermann S, Severinov K, Zhang F, Koonin EV | Molecular cell | 26593719 | Mol Cell | 2015 Nov 5 | https://www.ncbi.nlm.nih.gov/pubmed/26593719 |
| CRISPR/Cas9 cleavage of viral DNA efficiently suppresses hepatitis B virus. | Ramanan V, Shlomai A, Cox DB, Schwartz RE, Michailidis E, Bhatta A, Scott DA, Zhang F, Rice CM, Bhatia SN | Scientific reports | 26035283 | Sci Rep | 2015 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/26035283 |
| Sequence determinants of improved CRISPR sgRNA design. | Xu H, Xiao T, Chen CH, Li W, Meyer CA, Wu Q, Wu D, Cong L, Zhang F, Liu JS, Brown M, Liu XS | Genome research | 26063738 | Genome Res | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26063738 |
| Applications of CRISPR-Cas systems in neuroscience. | Heidenreich M, Zhang F | Nature reviews. Neuroscience | 26656253 | Nat Rev Neurosci | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26656253 |
| In vivo gene editing in dystrophic mouse muscle and muscle stem cells. | Tabebordbar M, Zhu K, Cheng JKW, Chew WL, Widrick JJ, Yan WX, Maesner C, Wu EY, Xiao R, Ran FA, Cong L, Zhang F, Vandenberghe LH, Church GM, Wagers AJ | Science (New York, N.Y.) | 26721686 | Science | 2016 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/26721686 |
| Structure and Engineering of Francisella novicida Cas9. | Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O | Cell | 26875867 | Cell | 2016 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/26875867 |
| The Clustered, Regularly Interspaced, Short Palindromic Repeats-associated Endonuclease 9 (CRISPR/Cas9)-created MDM2 T309G Mutation Enhances Vitreous-induced Expression of MDM2 and Proliferation and Survival of Cells. | Duan Y, Ma G, Huang X, D'Amore PA, Zhang F, Lei H | The Journal of biological chemistry | 27246850 | J Biol Chem | 2016 Jul 29 | https://www.ncbi.nlm.nih.gov/pubmed/27246850 |
| Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons. | Habib N, Li Y, Heidenreich M, Swiech L, Avraham-Davidi I, Trombetta JJ, Hession C, Zhang F, Regev A | Science (New York, N.Y.) | 27471252 | Science | 2016 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/27471252 |
| A cytosine deaminase for programmable single-base RNA editing. | Abudayyeh OO, Gootenberg JS, Franklin B, Koob J, Kellner MJ, Ladha A, Joung J, Kirchgatterer P, Cox DBT, Zhang F | Science (New York, N.Y.) | 31296651 | Science | 2019 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/31296651 |
| GUIDES: sgRNA design for loss-of-function screens. | Meier JA, Zhang F, Sanjana NE | Nature methods | 28858339 | Nat Methods | 2017 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/28858339 |
| Structural Basis for the Altered PAM Recognition by Engineered CRISPR-Cpf1. | Nishimasu H, Yamano T, Gao L, Zhang F, Ishitani R, Nureki O | Molecular cell | 28595896 | Mol Cell | 2017 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/28595896 |
| Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites. | Schwartz S, Mumbach MR, Jovanovic M, Wang T, Maciag K, Bushkin GG, Mertins P, Ter-Ovanesyan D, Habib N, Cacchiarelli D, Sanjana NE, Freinkman E, Pacold ME, Satija R, Mikkelsen TS, Hacohen N, Zhang F, Carr SA, Lander ES, Regev A | Cell reports | 24981863 | Cell Rep | 2014 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/24981863 |
| Genome-scale CRISPR-Cas9 knockout screening in human cells. | Shalem O, Sanjana NE, Hartenian E, Shi X, Scott DA, Mikkelson T, Heckl D, Ebert BL, Root DE, Doench JG, Zhang F | Science (New York, N.Y.) | 24336571 | Science | 2014 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/24336571 |
| Orthogonal gene knockout and activation with a catalytically active Cas9 nuclease. | Dahlman JE, Abudayyeh OO, Joung J, Gootenberg JS, Zhang F, Konermann S | Nature biotechnology | 26436575 | Nat Biotechnol | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26436575 |
| Double nicking by RNA-guided CRISPR Cas9 for enhanced genome editing specificity. | Ran FA, Hsu PD, Lin CY, Gootenberg JS, Konermann S, Trevino AE, Scott DA, Inoue A, Matoba S, Zhang Y, Zhang F | Cell | 23992846 | Cell | 2013 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/23992846 |
| SHERLOCK: nucleic acid detection with CRISPR nucleases. | Kellner MJ, Koob JG, Gootenberg JS, Abudayyeh OO, Zhang F | Nature protocols | 31548639 | Nat Protoc | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31548639 |
| Chd8 Mutation Leads to Autistic-like Behaviors and Impaired Striatal Circuits. | Platt RJ, Zhou Y, Slaymaker IM, Shetty AS, Weisbach NR, Kim JA, Sharma J, Desai M, Sood S, Kempton HR, Crabtree GR, Feng G, Zhang F | Cell reports | 28402856 | Cell Rep | 2017 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/28402856 |
| Crystal Structure of Cpf1 in Complex with Guide RNA and Target DNA. | Yamano T, Nishimasu H, Zetsche B, Hirano H, Slaymaker IM, Li Y, Fedorova I, Nakane T, Makarova KS, Koonin EV, Ishitani R, Zhang F, Nureki O | Cell | 27114038 | Cell | 2016 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/27114038 |
| CRISPR Tools for Systematic Studies of RNA Regulation. | Engreitz J, Abudayyeh O, Gootenberg J, Zhang F | Cold Spring Harbor perspectives in biology | 31371352 | Cold Spring Harb Perspect Biol | 2019 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/31371352 |
| C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector. | Abudayyeh OO, Gootenberg JS, Konermann S, Joung J, Slaymaker IM, Cox DB, Shmakov S, Makarova KS, Semenova E, Minakhin L, Severinov K, Regev A, Lander ES, Koonin EV, Zhang F | Science (New York, N.Y.) | 27256883 | Science | 2016 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/27256883 |
| Implications of human genetic variation in CRISPR-based therapeutic genome editing. | Scott DA, Zhang F | Nature medicine | 28759051 | Nat Med | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28759051 |
| Genome-scale CRISPR-Cas9 knockout and transcriptional activation screening. | Joung J, Konermann S, Gootenberg JS, Abudayyeh OO, Platt RJ, Brigham MD, Sanjana NE, Zhang F | Nature protocols | 28333914 | Nat Protoc | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28333914 |
| Multiplex genome engineering using CRISPR/Cas systems. | Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, Hsu PD, Wu X, Jiang W, Marraffini LA, Zhang F | Science (New York, N.Y.) | 23287718 | Science | 2013 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/23287718 |
| Comprehensive interrogation of natural TALE DNA-binding modules and transcriptional repressor domains. | Cong L, Zhou R, Kuo YC, Cunniff M, Zhang F | Nature communications | 22828628 | Nat Commun | 2012 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/22828628 |
| Genome engineering using the CRISPR-Cas9 system. | Ran FA, Hsu PD, Wright J, Agarwala V, Scott DA, Zhang F | Nature protocols | 24157548 | Nat Protoc | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24157548 |
| Brains, genes, and primates. | Izpisua Belmonte JC, Callaway EM, Caddick SJ, Churchland P, Feng G, Homanics GE, Lee KF, Leopold DA, Miller CT, Mitchell JF, Mitalipov S, Moutri AR, Movshon JA, Okano H, Reynolds JH, Ringach D, Sejnowski TJ, Silva AC, Strick PL, Wu J, Zhang F | Neuron | 25950631 | Neuron | 2015 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/25950631 |
| A split-Cas9 architecture for inducible genome editing and transcription modulation. | Zetsche B, Volz SE, Zhang F | Nature biotechnology | 25643054 | Nat Biotechnol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25643054 |
| In vivo interrogation of gene function in the mammalian brain using CRISPR-Cas9. | Swiech L, Heidenreich M, Banerjee A, Habib N, Li Y, Trombetta J, Sur M, Zhang F | Nature biotechnology | 25326897 | Nat Biotechnol | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25326897 |
| CRISPR-mediated direct mutation of cancer genes in the mouse liver. | Xue W, Chen S, Yin H, Tammela T, Papagiannakopoulos T, Joshi NS, Cai W, Yang G, Bronson R, Crowley DG, Zhang F, Anderson DG, Sharp PA, Jacks T | Nature | 25119044 | Nature | 2014 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/25119044 |
| In vivo genome editing using Staphylococcus aureus Cas9. | Ran FA, Cong L, Yan WX, Scott DA, Gootenberg JS, Kriz AJ, Zetsche B, Shalem O, Wu X, Makarova KS, Koonin EV, Sharp PA, Zhang F | Nature | 25830891 | Nature | 2015 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/25830891 |
| High-throughput functional genomics using CRISPR-Cas9. | Shalem O, Sanjana NE, Zhang F | Nature reviews. Genetics | 25854182 | Nat Rev Genet | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25854182 |
| Genome-wide CRISPR screen in a mouse model of tumor growth and metastasis. | Chen S, Sanjana NE, Zheng K, Shalem O, Lee K, Shi X, Scott DA, Song J, Pan JQ, Weissleder R, Lee H, Zhang F, Sharp PA | Cell | 25748654 | Cell | 2015 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/25748654 |
| Mice with Shank3 Mutations Associated with ASD and Schizophrenia Display Both Shared and Distinct Defects. | Zhou Y, Kaiser T, Monteiro P, Zhang X, Van der Goes MS, Wang D, Barak B, Zeng M, Li C, Lu C, Wells M, Amaya A, Nguyen S, Lewis M, Sanjana N, Zhou Y, Zhang M, Zhang F, Fu Z, Feng G | Neuron | 26687841 | Neuron | 2016 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/26687841 |
| Efficient CRISPR-Cas9-mediated genome editing in Plasmodium falciparum. | Wagner JC, Platt RJ, Goldfless SJ, Zhang F, Niles JC | Nature methods | 25108687 | Nat Methods | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25108687 |
| Development and applications of CRISPR-Cas9 for genome engineering. | Hsu PD, Lander ES, Zhang F | Cell | 24906146 | Cell | 2014 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/24906146 |
| Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood. | Joung J, Engreitz JM, Konermann S, Abudayyeh OO, Verdine VK, Aguet F, Gootenberg JS, Sanjana NE, Wright JB, Fulco CP, Tseng YY, Yoon CH, Boehm JS, Lander ES, Zhang F | Nature | 28792927 | Nature | 2017 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/28792927 |
| Engineered Cpf1 variants with altered PAM specificities. | Gao L, Cox DBT, Yan WX, Manteiga JC, Schneider MW, Yamano T, Nishimasu H, Nureki O, Crosetto N, Zhang F | Nature biotechnology | 28581492 | Nat Biotechnol | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28581492 |
| BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks. | Yan WX, Mirzazadeh R, Garnerone S, Scott D, Schneider MW, Kallas T, Custodio J, Wernersson E, Li Y, Gao L, Federova Y, Zetsche B, Zhang F, Bienko M, Crosetto N | Nature communications | 28497783 | Nat Commun | 2017 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/28497783 |
| Engineered CRISPR-Cas9 nuclease with expanded targeting space. | Nishimasu H, Shi X, Ishiguro S, Gao L, Hirano S, Okazaki S, Noda T, Abudayyeh OO, Gootenberg JS, Mori H, Oura S, Holmes B, Tanaka M, Seki M, Hirano H, Aburatani H, Ishitani R, Ikawa M, Yachie N, Zhang F, Nureki O | Science (New York, N.Y.) | 30166441 | Science | 2018 Sep 21 | https://www.ncbi.nlm.nih.gov/pubmed/30166441 |
| Multidimensional chemical control of CRISPR-Cas9. | Maji B, Moore CL, Zetsche B, Volz SE, Zhang F, Shoulders MD, Choudhary A | Nature chemical biology | 27820801 | Nat Chem Biol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27820801 |
| Hypoxia as a therapy for mitochondrial disease. | Jain IH, Zazzeron L, Goli R, Alexa K, Schatzman-Bone S, Dhillon H, Goldberger O, Peng J, Shalem O, Sanjana NE, Zhang F, Goessling W, Zapol WM, Mootha VK | Science (New York, N.Y.) | 26917594 | Science | 2016 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/26917594 |
| Multiplex gene editing by CRISPR-Cpf1 using a single crRNA array. | Zetsche B, Heidenreich M, Mohanraju P, Fedorova I, Kneppers J, DeGennaro EM, Winblad N, Choudhury SR, Abudayyeh OO, Gootenberg JS, Wu WY, Scott DA, Severinov K, van der Oost J, Zhang F | Nature biotechnology | 27918548 | Nat Biotechnol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27918548 |
| CRISPR-Cas9: Prospects and Challenges. | Zhang F | Human gene therapy | 26176430 | Hum Gene Ther | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26176430 |
| Cpf1 is a single RNA-guided endonuclease of a class 2 CRISPR-Cas system. | Zetsche B, Gootenberg JS, Abudayyeh OO, Slaymaker IM, Makarova KS, Essletzbichler P, Volz SE, Joung J, van der Oost J, Regev A, Koonin EV, Zhang F | Cell | 26422227 | Cell | 2015 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/26422227 |
| A Genome-wide CRISPR Screen in Primary Immune Cells to Dissect Regulatory Networks. | Parnas O, Jovanovic M, Eisenhaure TM, Herbst RH, Dixit A, Ye CJ, Przybylski D, Platt RJ, Tirosh I, Sanjana NE, Shalem O, Satija R, Raychowdhury R, Mertins P, Carr SA, Zhang F, Hacohen N, Regev A | Cell | 26189680 | Cell | 2015 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/26189680 |
| Massively parallel single-nucleus RNA-seq with DroNc-seq. | Habib N, Avraham-Davidi I, Basu A, Burks T, Shekhar K, Hofree M, Choudhury SR, Aguet F, Gelfand E, Ardlie K, Weitz DA, Rozenblatt-Rosen O, Zhang F, Regev A | Nature methods | 28846088 | Nat Methods | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28846088 |
| Nucleic acid detection with CRISPR-Cas13a/C2c2. | Gootenberg JS, Abudayyeh OO, Lee JW, Essletzbichler P, Dy AJ, Joung J, Verdine V, Donghia N, Daringer NM, Freije CA, Myhrvold C, Bhattacharyya RP, Livny J, Regev A, Koonin EV, Hung DT, Sabeti PC, Collins JJ, Zhang F | Science (New York, N.Y.) | 28408723 | Science | 2017 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/28408723 |
| AAV-mediated direct in vivo CRISPR screen identifies functional suppressors in glioblastoma. | Chow RD, Guzman CD, Wang G, Schmidt F, Youngblood MW, Ye L, Errami Y, Dong MB, Martinez MA, Zhang S, Renauer P, Bilguvar K, Gunel M, Sharp PA, Zhang F, Platt RJ, Chen S | Nature neuroscience | 28805815 | Nat Neurosci | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28805815 |
| CRISPR-Cas9 knockin mice for genome editing and cancer modeling. | Platt RJ, Chen S, Zhou Y, Yim MJ, Swiech L, Kempton HR, Dahlman JE, Parnas O, Eisenhaure TM, Jovanovic M, Graham DB, Jhunjhunwala S, Heidenreich M, Xavier RJ, Langer R, Anderson DG, Hacohen N, Regev A, Feng G, Sharp PA, Zhang F | Cell | 25263330 | Cell | 2014 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/25263330 |
| Engineering and optimising deaminase fusions for genome editing. | Yang L, Briggs AW, Chew WL, Mali P, Guell M, Aach J, Goodman DB, Cox D, Kan Y, Lesha E, Soundararajan V, Zhang F, Church G | Nature communications | 27804970 | Nat Commun | 2016 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/27804970 |
| A Survey of Genome Editing Activity for 16 Cas12a Orthologs. | Zetsche B, Abudayyeh OO, Gootenberg JS, Scott DA, Zhang F | The Keio journal of medicine | 31723075 | Keio J Med | 2020 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/31723075 |
| Rationally engineered Cas9 nucleases with improved specificity. | Slaymaker IM, Gao L, Zetsche B, Scott DA, Yan WX, Zhang F | Science (New York, N.Y.) | 26628643 | Science | 2016 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/26628643 |
| High-resolution interrogation of functional elements in the noncoding genome. | Sanjana NE, Wright J, Zheng K, Shalem O, Fontanillas P, Joung J, Cheng C, Regev A, Zhang F | Science (New York, N.Y.) | 27708104 | Science | 2016 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/27708104 |
| An RNA-aptamer-based two-color CRISPR labeling system. | Wang S, Su JH, Zhang F, Zhuang X | Scientific reports | 27229896 | Sci Rep | 2016 May 27 | https://www.ncbi.nlm.nih.gov/pubmed/27229896 |
| Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells. | Wu X, Scott DA, Kriz AJ, Chiu AC, Hsu PD, Dadon DB, Cheng AW, Trevino AE, Konermann S, Chen S, Jaenisch R, Zhang F, Sharp PA | Nature biotechnology | 24752079 | Nat Biotechnol | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24752079 |
| Improved vectors and genome-wide libraries for CRISPR screening. | Sanjana NE, Shalem O, Zhang F | Nature methods | 25075903 | Nat Methods | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25075903 |
| Cas13b Is a Type VI-B CRISPR-Associated RNA-Guided RNase Differentially Regulated by Accessory Proteins Csx27 and Csx28. | Smargon AA, Cox DBT, Pyzocha NK, Zheng K, Slaymaker IM, Gootenberg JS, Abudayyeh OA, Essletzbichler P, Shmakov S, Makarova KS, Koonin EV, Zhang F | Molecular cell | 28065598 | Mol Cell | 2017 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/28065598 |
| Diversity and evolution of class 2 CRISPR-Cas systems. | Shmakov S, Smargon A, Scott D, Cox D, Pyzocha N, Yan W, Abudayyeh OO, Gootenberg JS, Makarova KS, Wolf YI, Severinov K, Zhang F, Koonin EV | Nature reviews. Microbiology | 28111461 | Nat Rev Microbiol | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28111461 |
| BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis. | Canver MC, Smith EC, Sher F, Pinello L, Sanjana NE, Shalem O, Chen DD, Schupp PG, Vinjamur DS, Garcia SP, Luc S, Kurita R, Nakamura Y, Fujiwara Y, Maeda T, Yuan GC, Zhang F, Orkin SH, Bauer DE | Nature | 26375006 | Nature | 2015 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/26375006 |
| Therapeutic genome editing: prospects and challenges. | Cox DB, Platt RJ, Zhang F | Nature medicine | 25654603 | Nat Med | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25654603 |
| In vivo genome editing improves muscle function in a mouse model of Duchenne muscular dystrophy. | Nelson CE, Hakim CH, Ousterout DG, Thakore PI, Moreb EA, Castellanos Rivera RM, Madhavan S, Pan X, Ran FA, Yan WX, Asokan A, Zhang F, Duan D, Gersbach CA | Science (New York, N.Y.) | 26721684 | Science | 2016 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/26721684 |
| Crystal structure of Cas9 in complex with guide RNA and target DNA. | Nishimasu H, Ran FA, Hsu PD, Konermann S, Shehata SI, Dohmae N, Ishitani R, Zhang F, Nureki O | Cell | 24529477 | Cell | 2014 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/24529477 |
| Structural Basis for the Canonical and Non-canonical PAM Recognition by CRISPR-Cpf1. | Yamano T, Zetsche B, Ishitani R, Zhang F, Nishimasu H, Nureki O | Molecular cell | 28781234 | Mol Cell | 2017 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/28781234 |
| RNA targeting with CRISPR-Cas13. | Abudayyeh OO, Gootenberg JS, Essletzbichler P, Han S, Joung J, Belanto JJ, Verdine V, Cox DBT, Kellner MJ, Regev A, Lander ES, Voytas DF, Ting AY, Zhang F | Nature | 28976959 | Nature | 2017 Oct 12 | https://www.ncbi.nlm.nih.gov/pubmed/28976959 |
| One-step generation of mice carrying mutations in multiple genes by CRISPR/Cas-mediated genome engineering. | Wang H, Yang H, Shivalila CS, Dawlaty MM, Cheng AW, Zhang F, Jaenisch R | Cell | 23643243 | Cell | 2013 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/23643243 |
| Common genetic variants modulate pathogen-sensing responses in human dendritic cells. | Lee MN, Ye C, Villani AC, Raj T, Li W, Eisenhaure TM, Imboywa SH, Chipendo PI, Ran FA, Slowikowski K, Ward LD, Raddassi K, McCabe C, Lee MH, Frohlich IY, Hafler DA, Kellis M, Raychaudhuri S, Zhang F, Stranger BE, Benoist CO, De Jager PL, Regev A, Hacohen N | Science (New York, N.Y.) | 24604203 | Science | 2014 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/24604203 |
| Global microRNA depletion suppresses tumor angiogenesis. | Chen S, Xue Y, Wu X, Le C, Bhutkar A, Bell EL, Zhang F, Langer R, Sharp PA | Genes & development | 24788094 | Genes Dev | 2014 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/24788094 |
| Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex. | Konermann S, Brigham MD, Trevino AE, Joung J, Abudayyeh OO, Barcena C, Hsu PD, Habib N, Gootenberg JS, Nishimasu H, Nureki O, Zhang F | Nature | 25494202 | Nature | 2015 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/25494202 |
| Structural basis for the promiscuous PAM recognition by Corynebacterium diphtheriae Cas9. | Hirano S, Abudayyeh OO, Gootenberg JS, Horii T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O | Nature communications | 31036811 | Nat Commun | 2019 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/31036811 |
| Dynamics of embryonic stem cell differentiation inferred from single-cell transcriptomics show a series of transitions through discrete cell states. | Jang S, Choubey S, Furchtgott L, Zou LN, Doyle A, Menon V, Loew EB, Krostag AR, Martinez RA, Madisen L, Levi BP, Ramanathan S | eLife | 28296635 | Elife | 2017 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/28296635 |
| Discovering sparse transcription factor codes for cell states and state transitions during development. | Furchtgott LA, Melton S, Menon V, Ramanathan S | eLife | 28296636 | Elife | 2017 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/28296636 |
| Controlling interneuron activity in Caenorhabditis elegans to evoke chemotactic behaviour. | Kocabas A, Shen CH, Guo ZV, Ramanathan S | Nature | 23000898 | Nature | 2012 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/23000898 |
| A Single-Cell Roadmap of Lineage Bifurcation in Human ESC Models of Embryonic Brain Development. | Yao Z, Mich JK, Ku S, Menon V, Krostag AR, Martinez RA, Furchtgott L, Mulholland H, Bort S, Fuqua MA, Gregor BW, Hodge RD, Jayabalu A, May RC, Melton S, Nelson AM, Ngo NK, Shapovalova NV, Shehata SI, Smith MW, Tait LJ, Thompson CL, Thomsen ER, Ye C, Glass IA, Kaykas A, Yao S, Phillips JW, Grimley JS, Levi BP, Wang Y, Ramanathan S | Cell stem cell | 28094016 | Cell Stem Cell | 2017 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/28094016 |
| Single-Cell Profiling of an In Vitro Model of Human Interneuron Development Reveals Temporal Dynamics of Cell Type Production and Maturation. | Close JL, Yao Z, Levi BP, Miller JA, Bakken TE, Menon V, Ting JT, Wall A, Krostag AR, Thomsen ER, Nelson AM, Mich JK, Hodge RD, Shehata SI, Glass IA, Bort S, Shapovalova NV, Ngo NK, Grimley JS, Phillips JW, Thompson CL, Ramanathan S, Lein E | Neuron | 29144976 | Neuron | 2017 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/29144976 |
| Fixed single-cell transcriptomic characterization of human radial glial diversity. | Thomsen ER, Mich JK, Yao Z, Hodge RD, Doyle AM, Jang S, Shehata SI, Nelson AM, Shapovalova NV, Levi BP, Ramanathan S | Nature methods | 26524239 | Nat Methods | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26524239 |
| Single-Cell Profiling of an In Vitro Model of Human Interneuron Development Reveals Temporal Dynamics of Cell Type Production and Maturation. | Close JL, Yao Z, Levi BP, Miller JA, Bakken TE, Menon V, Ting JT, Wall A, Krostag AR, Thomsen ER, Nelson AM, Mich JK, Hodge RD, Shehata SI, Glass IA, Bort S, Shapovalova NV, Ngo NK, Grimley JS, Phillips JW, Thompson CL, Ramanathan S, Lein E | Neuron | 28279351 | Neuron | 2017 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/28279351 |
| A wireless transmission neural interface system for unconstrained non-human primates. | Fernandez-Leon JA, Parajuli A, Franklin R, Sorenson M, Felleman DJ, Hansen BJ, Hu M, Dragoi V | Journal of neural engineering | 26269496 | J Neural Eng | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26269496 |
| The human brain in a dish: the promise of iPSC-derived neurons. | Dolmetsch R, Geschwind DH | Cell | 21663789 | Cell | 2011 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/21663789 |
| Embedding a Panoramic Representation of Infrared Light in the Adult Rat Somatosensory Cortex through a Sensory Neuroprosthesis. | Hartmann K, Thomson EE, Zea I, Yun R, Mullen P, Canarick J, Huh A, Nicolelis MA | The Journal of neuroscience : the official journal of the Society for Neuroscience | 26911689 | J Neurosci | 2016 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/26911689 |
| Wireless Cortical Brain-Machine Interface for Whole-Body Navigation in Primates. | Rajangam S, Tseng PH, Yin A, Lehew G, Schwarz D, Lebedev MA, Nicolelis MA | Scientific reports | 26938468 | Sci Rep | 2016 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/26938468 |
| Toward a whole-body neuroprosthetic. | Lebedev MA, Nicolelis MA | Progress in brain research | 21867793 | Prog Brain Res | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21867793 |
| Generating artificial sensations with spinal cord stimulation in primates and rodents. | Yadav AP, Li S, Krucoff MO, Lebedev MA, Abd-El-Barr MM, Nicolelis MAL | Brain stimulation | 34015518 | Brain Stimul | 2021 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/34015518 |
| Joint cross-correlation analysis reveals complex, time-dependent functional relationship between cortical neurons and arm electromyograms. | Zhuang KZ, Lebedev MA, Nicolelis MA | Journal of neurophysiology | 25210153 | J Neurophysiol | 2014 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/25210153 |
| Building an organic computing device with multiple interconnected brains. | Pais-Vieira M, Chiuffa G, Lebedev M, Yadav A, Nicolelis MA | Scientific reports | 26158615 | Sci Rep | 2015 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/26158615 |
| Perceiving invisible light through a somatosensory cortical prosthesis. | Thomson EE, Carra R, Nicolelis MA | Nature communications | 23403583 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23403583 |
| Cortical and thalamic contributions to response dynamics across layers of the primary somatosensory cortex during tactile discrimination. | Pais-Vieira M, Kunicki C, Tseng PH, Martin J, Lebedev M, Nicolelis MA | Journal of neurophysiology | 26180115 | J Neurophysiol | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26180115 |
| A novel paraplegia model in awake behaving macaques. | Krucoff MO, Zhuang K, MacLeod D, Yin A, Byun YW, Manson RJ, Turner DA, Oliveira L, Lebedev MA | Journal of neurophysiology | 28701540 | J Neurophysiol | 2017 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/28701540 |
| Future developments in brain-machine interface research. | Lebedev MA, Tate AJ, Hanson TL, Li Z, O'Doherty JE, Winans JA, Ifft PJ, Zhuang KZ, Fitzsimmons NA, Schwarz DA, Fuller AM, An JH, Nicolelis MA | Clinics (Sao Paulo, Brazil) | 21779720 | Clinics (Sao Paulo) | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21779720 |
| Expanding the primate body schema in sensorimotor cortex by virtual touches of an avatar. | Shokur S, O'Doherty JE, Winans JA, Bleuler H, Lebedev MA, Nicolelis MA | Proceedings of the National Academy of Sciences of the United States of America | 23980141 | Proc Natl Acad Sci U S A | 2013 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/23980141 |
| An automatic experimental apparatus to study arm reaching in New World monkeys. | Yin A, An J, Lehew G, Lebedev MA, Nicolelis MAL | Journal of neuroscience methods | 26928257 | J Neurosci Methods | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/26928257 |
| Interbrain cortical synchronization encodes multiple aspects of social interactions in monkey pairs. | Tseng PH, Rajangam S, Lehew G, Lebedev MA, Nicolelis MAL | Scientific reports | 29599529 | Sci Rep | 2018 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/29599529 |
| A brain-machine interface enables bimanual arm movements in monkeys. | Ifft PJ, Shokur S, Li Z, Lebedev MA, Nicolelis MA | Science translational medicine | 24197735 | Sci Transl Med | 2013 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/24197735 |
| Simultaneous top-down modulation of the primary somatosensory cortex and thalamic nuclei during active tactile discrimination. | Pais-Vieira M, Lebedev MA, Wiest MC, Nicolelis MA | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23447616 | J Neurosci | 2013 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/23447616 |
| A brain-to-brain interface for real-time sharing of sensorimotor information. | Pais-Vieira M, Lebedev M, Kunicki C, Wang J, Nicolelis MA | Scientific reports | 23448946 | Sci Rep | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23448946 |
| Computing Arm Movements with a Monkey Brainet. | Ramakrishnan A, Ifft PJ, Pais-Vieira M, Byun YW, Zhuang KZ, Lebedev MA, Nicolelis MAL | Scientific reports | 26158523 | Sci Rep | 2015 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/26158523 |
| Dendritic glutamate receptor mRNAs show contingent local hotspot-dependent translational dynamics. | Kim TK, Sul JY, Helmfors H, Langel U, Kim J, Eberwine J | Cell reports | 24075992 | Cell Rep | 2013 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/24075992 |
| Elk-1 phosphorylated at threonine-417 is present in diverse cancers and correlates with differentiation grade of colonic adenocarcinoma. | Morris JF, Sul JY, Kim MS, Klein-Szanto AJ, Schochet T, Rustgi A, Eberwine JH | Human pathology | 23114923 | Hum Pathol | 2013 May | https://www.ncbi.nlm.nih.gov/pubmed/23114923 |
| Antimicrobial efflux pumps and Mycobacterium tuberculosis drug tolerance: evolutionary considerations. | Szumowski JD, Adams KN, Edelstein PH, Ramakrishnan L | Current topics in microbiology and immunology | 23242857 | Curr Top Microbiol Immunol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23242857 |
| mTOR-regulated mitochondrial metabolism limits mycobacterium-induced cytotoxicity. | Pagán AJ, Lee LJ, Edwards-Hicks J, Moens CB, Tobin DM, Busch-Nentwich EM, Pearce EL, Ramakrishnan L | Cell | 36103894 | Cell | 2022 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/36103894 |
| Drug tolerance in replicating mycobacteria mediated by a macrophage-induced efflux mechanism. | Adams KN, Takaki K, Connolly LE, Wiedenhoft H, Winglee K, Humbert O, Edelstein PH, Cosma CL, Ramakrishnan L | Cell | 21376383 | Cell | 2011 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/21376383 |
| Revisiting the role of the granuloma in tuberculosis. | Ramakrishnan L | Nature reviews. Immunology | 22517424 | Nat Rev Immunol | 2012 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/22517424 |
| An enzyme that inactivates the inflammatory mediator leukotriene b4 restricts mycobacterial infection. | Tobin DM, Roca FJ, Ray JP, Ko DC, Ramakrishnan L | PloS one | 23874453 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23874453 |
| Neutrophils exert protection in the early tuberculous granuloma by oxidative killing of mycobacteria phagocytosed from infected macrophages. | Yang CT, Cambier CJ, Davis JM, Hall CJ, Crosier PS, Ramakrishnan L | Cell host & microbe | 22980327 | Cell Host Microbe | 2012 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/22980327 |
| Insights into tuberculosis from the zebrafish model. | Berg RD, Ramakrishnan L | Trends in molecular medicine | 23084762 | Trends Mol Med | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23084762 |
| Looking within the zebrafish to understand the tuberculous granuloma. | Ramakrishnan L | Advances in experimental medicine and biology | 23468113 | Adv Exp Med Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23468113 |
| TB: the Yin and Yang of lipid mediators. | Tobin DM, Ramakrishnan L | Current opinion in pharmacology | 23849093 | Curr Opin Pharmacol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23849093 |
| An in vivo platform for rapid high-throughput antitubercular drug discovery. | Takaki K, Cosma CL, Troll MA, Ramakrishnan L | Cell reports | 22840407 | Cell Rep | 2012 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/22840407 |
| Host genotype-specific therapies can optimize the inflammatory response to mycobacterial infections. | Tobin DM, Roca FJ, Oh SF, McFarland R, Vickery TW, Ray JP, Ko DC, Zou Y, Bang ND, Chau TT, Vary JC, Hawn TR, Dunstan SJ, Farrar JJ, Thwaites GE, King MC, Serhan CN, Ramakrishnan L | Cell | 22304914 | Cell | 2012 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/22304914 |
| Turning on caspases with genetics and small molecules. | Morgan CW, Julien O, Unger EK, Shah NM, Wells JA | Methods in enzymology | 24974291 | Methods Enzymol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24974291 |
| Neural control of sexually dimorphic behaviors. | Manoli DS, Fan P, Fraser EJ, Shah NM | Current opinion in neurobiology | 23680385 | Curr Opin Neurobiol | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23680385 |
| Representing sex in the brain, one module at a time. | Yang CF, Shah NM | Neuron | 24742456 | Neuron | 2014 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/24742456 |
| Oxytocin receptor is not required for social attachment in prairie voles. | Berendzen KM, Sharma R, Mandujano MA, Wei Y, Rogers FD, Simmons TC, Seelke AMH, Bond JM, Larios R, Goodwin NL, Sherman M, Parthasarthy S, Espineda I, Knoedler JR, Beery A, Bales KL, Shah NM, Manoli DS | Neuron | 36708707 | Neuron | 2023 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/36708707 |
| Sexually dimorphic neurons in the ventromedial hypothalamus govern mating in both sexes and aggression in males. | Yang CF, Chiang MC, Gray DC, Prabhakaran M, Alvarado M, Juntti SA, Unger EK, Wells JA, Shah NM | Cell | 23663785 | Cell | 2013 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/23663785 |
| Ensuring Equitable Access to Patient Portals-Closing the "Techquity" Gap. | Johnson KB, Ibrahim SA, Rosenbloom ST | JAMA health forum | 37948065 | JAMA Health Forum | 2023 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/37948065 |
| A novel decision modeling framework for health policy analyses when outcomes are influenced by social and disease processes. | Cusick MM, Alarid-Escudero F, Goldhaber-Fiebert JD, Rose S | medRxiv : the preprint server for health sciences | 40061345 | medRxiv | 2025 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/40061345 |
| Denial-Artificial Intelligence Tools and Health Insurance Coverage Decisions. | Mello MM, Rose S | JAMA health forum | 38451493 | JAMA Health Forum | 2024 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/38451493 |
| Recommendations for the use of pediatric data in artificial intelligence and machine learning ACCEPT-AI. | Muralidharan V, Burgart A, Daneshjou R, Rose S | NPJ digital medicine | 37673925 | NPJ Digit Med | 2023 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/37673925 |
| A call for better validation of opioid overdose risk algorithms. | McElfresh DC, Chen L, Oliva E, Joyce V, Rose S, Tamang S | Journal of the American Medical Informatics Association : JAMIA | 37428897 | J Am Med Inform Assoc | 2023 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/37428897 |
| Clinical Research Reporting Paradigms May Incompletely Describe Participant Identities. | Enache OM, Rosas LG, Rose S | American journal of epidemiology | 39191644 | Am J Epidemiol | 2024 Aug 27 | https://www.ncbi.nlm.nih.gov/pubmed/39191644 |
| Fates Aligned: Origins and Mechanisms of Ventricular Conduction System and Ventricular Wall Development. | Goodyer WR, Wu SM | Pediatric cardiology | 29594502 | Pediatr Cardiol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29594502 |
| Cardiovascular tissue bioprinting: Physical and chemical processes. | Hu JB, Tomov ML, Buikema JW, Chen C, Mahmoudi M, Wu SM, Serpooshan V | Applied physics reviews | 32550960 | Appl Phys Rev | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/32550960 |
| CRISPR/Cas9-based targeting of fluorescent reporters to human iPSCs to isolate atrial and ventricular-specific cardiomyocytes. | Chirikian O, Goodyer WR, Dzilic E, Serpooshan V, Buikema JW, McKeithan W, Wu H, Li G, Lee S, Merk M, Galdos F, Beck A, Ribeiro AJS, Paige S, Mercola M, Wu JC, Pruitt BL, Wu SM | Scientific reports | 33542270 | Sci Rep | 2021 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/33542270 |
| Lift NIH restrictions on chimera research. | Sharma A, Sebastiano V, Scott CT, Magnus D, Koyano-Nakagawa N, Garry DJ, Witte ON, Nakauchi H, Wu JC, Weissman IL, Wu SM | Science (New York, N.Y.) | 26542560 | Science | 2015 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/26542560 |
| Derivation of highly purified cardiomyocytes from human induced pluripotent stem cells using small molecule-modulated differentiation and subsequent glucose starvation. | Sharma A, Li G, Rajarajan K, Hamaguchi R, Burridge PW, Wu SM | Journal of visualized experiments : JoVE | 25867738 | J Vis Exp | 2015 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/25867738 |
| Big bottlenecks in cardiovascular tissue engineering. | Huang NF, Serpooshan V, Morris VB, Sayed N, Pardon G, Abilez OJ, Nakayama KH, Pruitt BL, Wu SM, Yoon YS, Zhang J, Wu JC | Communications biology | 30480100 | Commun Biol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30480100 |
| Wnt Activation and Reduced Cell-Cell Contact Synergistically Induce Massive Expansion of Functional Human iPSC-Derived Cardiomyocytes. | Buikema JW, Lee S, Goodyer WR, Maas RG, Chirikian O, Li G, Miao Y, Paige SL, Lee D, Wu H, Paik DT, Rhee S, Tian L, Galdos FX, Puluca N, Beyersdorf B, Hu J, Beck A, Venkamatran S, Swami S, Wijnker P, Schuldt M, Dorsch LM, van Mil A, Red-Horse K, Wu JY, Geisen C, Hesse M, Serpooshan V, Jovinge S, Fleischmann BK, Doevendans PA, van der Velden J, Garcia KC, Wu JC, Sluijter JPG, Wu SM | Cell stem cell | 32619518 | Cell Stem Cell | 2020 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/32619518 |
| Bioacoustic-enabled patterning of human iPSC-derived cardiomyocytes into 3D cardiac tissue. | Serpooshan V, Chen P, Wu H, Lee S, Sharma A, Hu DA, Venkatraman S, Ganesan AV, Usta OB, Yarmush M, Yang F, Wu JC, Demirci U, Wu SM | Biomaterials | 28376365 | Biomaterials | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28376365 |
| Identification of Pathogenic Immune Cell Subsets Associated With Checkpoint Inhibitor-Induced Myocarditis. | Zhu H, Galdos FX, Lee D, Waliany S, Huang YV, Ryan J, Dang K, Neal JW, Wakelee HA, Reddy SA, Srinivas S, Lin LL, Witteles RM, Maecker HT, Davis MM, Nguyen PK, Wu SM | Circulation | 35762356 | Circulation | 2022 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/35762356 |
| Molecular regulation of cardiomyocyte differentiation. | Paige SL, Plonowska K, Xu A, Wu SM | Circulation research | 25593278 | Circ Res | 2015 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/25593278 |
| Identification of cardiovascular lineage descendants at single-cell resolution. | Li G, Plonowska K, Kuppusamy R, Sturzu A, Wu SM | Development (Cambridge, England) | 25633351 | Development | 2015 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/25633351 |
| Transcriptomic Profiling Maps Anatomically Patterned Subpopulations among Single Embryonic Cardiac Cells. | Li G, Xu A, Sim S, Priest JR, Tian X, Khan T, Quertermous T, Zhou B, Tsao PS, Quake SR, Wu SM | Developmental cell | 27840109 | Dev Cell | 2016 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/27840109 |
| Single cell expression analysis reveals anatomical and cell cycle-dependent transcriptional shifts during heart development. | Li G, Tian L, Goodyer W, Kort EJ, Buikema JW, Xu A, Wu JC, Jovinge S, Wu SM | Development (Cambridge, England) | 31142541 | Development | 2019 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/31142541 |
| Stage-specific Effects of Bioactive Lipids on Human iPSC Cardiac Differentiation and Cardiomyocyte Proliferation. | Sharma A, Zhang Y, Buikema JW, Serpooshan V, Chirikian O, Kosaric N, Churko JM, Dzilic E, Shieh A, Burridge PW, Wu JC, Wu SM | Scientific reports | 29700394 | Sci Rep | 2018 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/29700394 |
| Tissue Engineering of 3D Organotypic Microtissues by Acoustic Assembly. | Zhu Y, Serpooshan V, Wu S, Demirci U, Chen P, Güven S | Methods in molecular biology (Clifton, N.J.) | 28921421 | Methods Mol Biol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/28921421 |
| Bioprinting Approaches to Engineering Vascularized 3D Cardiac Tissues. | Puluca N, Lee S, Doppler S, Münsterer A, Dreßen M, Krane M, Wu SM | Current cardiology reports | 31352612 | Curr Cardiol Rep | 2019 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/31352612 |
| Harnessing the Induction of Cardiomyocyte Proliferation for Cardiac Regenerative Medicine. | Sharma A, Zhang Y, Wu SM | Current treatment options in cardiovascular medicine | 26324824 | Curr Treat Options Cardiovasc Med | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26324824 |
| Partial Reprogramming of Pluripotent Stem Cell-Derived Cardiomyocytes into Neurons. | Chuang W, Sharma A, Shukla P, Li G, Mall M, Rajarajan K, Abilez OJ, Hamaguchi R, Wu JC, Wernig M, Wu SM | Scientific reports | 28327614 | Sci Rep | 2017 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/28327614 |
| Cardiac Regeneration: Lessons From Development. | Galdos FX, Guo Y, Paige SL, VanDusen NJ, Wu SM, Pu WT | Circulation research | 28302741 | Circ Res | 2017 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/28302741 |
| Identification of a hybrid myocardial zone in the mammalian heart after birth. | Tian X, Li Y, He L, Zhang H, Huang X, Liu Q, Pu W, Zhang L, Li Y, Zhao H, Wang Z, Zhu J, Nie Y, Hu S, Sedmera D, Zhong TP, Yu Y, Zhang L, Yan Y, Qiao Z, Wang QD, Wu SM, Pu WT, Anderson RH, Zhou B | Nature communications | 28729659 | Nat Commun | 2017 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/28729659 |
| Cardiovascular Complications in Patients with COVID-19: Consequences of Viral Toxicities and Host Immune Response. | Zhu H, Rhee JW, Cheng P, Waliany S, Chang A, Witteles RM, Maecker H, Davis MM, Nguyen PK, Wu SM | Current cardiology reports | 32318865 | Curr Cardiol Rep | 2020 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/32318865 |
| Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris. | Tabula Muris Consortium, Overall coordination, Logistical coordination, Organ collection and processing, Library preparation and sequencing, Computational data analysis, Cell type annotation, Writing group, Supplemental text writing group, Principal investigators | Nature | 30283141 | Nature | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30283141 |
| Prometheus Unbound in Ya(p) Heart. | Buikema JW, Wu SM | Developmental cell | 30913402 | Dev Cell | 2019 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/30913402 |
| In vivo visualization and molecular targeting of the cardiac conduction system. | Goodyer WR, Beyersdorf BM, Duan L, van den Berg NS, Mantri S, Galdos FX, Puluca N, Buikema JW, Lee S, Salmi D, Robinson ER, Rogalla S, Cogan DP, Khosla C, Rosenthal EL, Wu SM | The Journal of clinical investigation | 35951416 | J Clin Invest | 2022 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/35951416 |
| Patient-Specific Induced Pluripotent Stem Cells Implicate Intrinsic Impaired Contractility in Hypoplastic Left Heart Syndrome. | Paige SL, Galdos FX, Lee S, Chin ET, Ranjbarvaziri S, Feyen DAM, Darsha AK, Xu S, Ryan JA, Beck AL, Qureshi MY, Miao Y, Gu M, Bernstein D, Nelson TJ, Mercola M, Rabinovitch M, Ashley EA, Parikh VN, Wu SM | Circulation | 33074758 | Circulation | 2020 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/33074758 |
| Nkx2.5+ Cardiomyoblasts Contribute to Cardiomyogenesis in the Neonatal Heart. | Serpooshan V, Liu YH, Buikema JW, Galdos FX, Chirikian O, Paige S, Venkatraman S, Kumar A, Rawnsley DR, Huang X, Pijnappels DA, Wu SM | Scientific reports | 28974782 | Sci Rep | 2017 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/28974782 |
| Intrinsic Endocardial Defects Contribute to Hypoplastic Left Heart Syndrome. | Miao Y, Tian L, Martin M, Paige SL, Galdos FX, Li J, Klein A, Zhang H, Ma N, Wei Y, Stewart M, Lee S, Moonen JR, Zhang B, Grossfeld P, Mital S, Chitayat D, Wu JC, Rabinovitch M, Nelson TJ, Nie S, Wu SM, Gu M | Cell stem cell | 32810435 | Cell Stem Cell | 2020 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/32810435 |
| Cardiovascular Risks in Patients with COVID-19: Potential Mechanisms and Areas of Uncertainty. | Cheng P, Zhu H, Witteles RM, Wu JC, Quertermous T, Wu SM, Rhee JW | Current cardiology reports | 32350632 | Curr Cardiol Rep | 2020 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/32350632 |
| Levitating Cells to Sort the Fit and the Fat. | Puluca N, Durmus NG, Lee S, Belbachir N, Galdos FX, Ogut MG, Gupta R, Hirano KI, Krane M, Lange R, Wu JC, Wu SM, Demirci U | Advanced biosystems | 32352239 | Adv Biosyst | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32352239 |
| High-throughput screening of tyrosine kinase inhibitor cardiotoxicity with human induced pluripotent stem cells. | Sharma A, Burridge PW, McKeithan WL, Serrano R, Shukla P, Sayed N, Churko JM, Kitani T, Wu H, Holmström A, Matsa E, Zhang Y, Kumar A, Fan AC, Del Álamo JC, Wu SM, Moslehi JJ, Mercola M, Wu JC | Science translational medicine | 28202772 | Sci Transl Med | 2017 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/28202772 |
| Mammalian Heart Regeneration: The Race to the Finish Line. | Doppler SA, Deutsch MA, Serpooshan V, Li G, Dzilic E, Lange R, Krane M, Wu SM | Circulation research | 28209796 | Circ Res | 2017 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/28209796 |
| Reassessment of c-Kit in Cardiac Cells: A Complex Interplay Between Expression, Fate, and Function. | Zhou B, Wu SM | Circulation research | 29929968 | Circ Res | 2018 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/29929968 |
| Ageing hallmarks exhibit organ-specific temporal signatures. | Schaum N, Lehallier B, Hahn O, Pálovics R, Hosseinzadeh S, Lee SE, Sit R, Lee DP, Losada PM, Zardeneta ME, Fehlmann T, Webber JT, McGeever A, Calcuttawala K, Zhang H, Berdnik D, Mathur V, Tan W, Zee A, Tan M, Tabula Muris Consortium, Pisco AO, Karkanias J, Neff NF, Keller A, Darmanis S, Quake SR, Wyss-Coray T | Nature | 32669715 | Nature | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32669715 |
| Patching up broken hearts: cardiac cell therapy gets a bioengineered boost. | Serpooshan V, Wu SM | Cell stem cell | 25479741 | Cell Stem Cell | 2014 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/25479741 |
| 4HNE Impairs Myocardial Bioenergetics in Congenital Heart Disease-Induced Right Ventricular Failure. | Hwang HV, Sandeep N, Paige SL, Ranjbarvaziri S, Hu DQ, Zhao M, Lan IS, Coronado M, Kooiker KB, Wu SM, Fajardo G, Bernstein D, Reddy S | Circulation | 32806952 | Circulation | 2020 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/32806952 |
| YY1 Expression Is Sufficient for the Maintenance of Cardiac Progenitor Cell State. | Gregoire S, Li G, Sturzu AC, Schwartz RJ, Wu SM | Stem cells (Dayton, Ohio) | 28580685 | Stem Cells | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28580685 |
| Strategies for the acquisition of transcriptional and epigenetic information in single cells. | Li G, Dzilic E, Flores N, Shieh A, Wu SM | Journal of thoracic disease | 28446964 | J Thorac Dis | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28446964 |
| Untangling the Biology of Genetic Cardiomyopathies with Pluripotent Stem Cell Disease Models. | Buikema JW, Wu SM | Current cardiology reports | 28315121 | Curr Cardiol Rep | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28315121 |
| Genome Editing Redefines Precision Medicine in the Cardiovascular Field. | Dzilic E, Lahm H, Dreßen M, Deutsch MA, Lange R, Wu SM, Krane M, Doppler SA | Stem cells international | 29731778 | Stem Cells Int | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29731778 |
| Distilling complexity to advance cardiac tissue engineering. | Ogle BM, Bursac N, Domian I, Huang NF, Menasché P, Murry CE, Pruitt B, Radisic M, Wu JC, Wu SM, Zhang J, Zimmermann WH, Vunjak-Novakovic G | Science translational medicine | 27280684 | Sci Transl Med | 2016 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/27280684 |
| Effects of Spaceflight on Human Induced Pluripotent Stem Cell-Derived Cardiomyocyte Structure and Function. | Wnorowski A, Sharma A, Chen H, Wu H, Shao NY, Sayed N, Liu C, Countryman S, Stodieck LS, Rubins KH, Wu SM, Lee PHU, Wu JC | Stem cell reports | 31708475 | Stem Cell Reports | 2019 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/31708475 |
| Reactivation of the Nkx2.5 cardiac enhancer after myocardial infarction does not presage myogenesis. | Deutsch MA, Doppler SA, Li X, Lahm H, Santamaria G, Cuda G, Eichhorn S, Ratschiller T, Dzilic E, Dreßen M, Eckart A, Stark K, Massberg S, Bartels A, Rischpler C, Gilsbach R, Hein L, Fleischmann BK, Wu SM, Lange R, Krane M | Cardiovascular research | 29579159 | Cardiovasc Res | 2018 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/29579159 |
| Integrin Based Isolation Enables Purification of Murine Lineage Committed Cardiomyocytes. | Tarnawski L, Xian X, Monnerat G, Macaulay IC, Malan D, Borgman A, Wu SM, Fleischmann BK, Jovinge S | PloS one | 26323090 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26323090 |
| Members Only: Hypoxia-Induced Cell-Cycle Activation in Cardiomyocytes. | Sharma A, Wu SM | Cell metabolism | 26331604 | Cell Metab | 2015 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/26331604 |
| iPSC-derived cardiomyocytes reveal abnormal TGF-β signalling in left ventricular non-compaction cardiomyopathy. | Kodo K, Ong SG, Jahanbani F, Termglinchan V, Hirono K, InanlooRahatloo K, Ebert AD, Shukla P, Abilez OJ, Churko JM, Karakikes I, Jung G, Ichida F, Wu SM, Snyder MP, Bernstein D, Wu JC | Nature cell biology | 27642787 | Nat Cell Biol | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27642787 |
| The relationship between cardiac endothelium and fibroblasts: it's complicated. | Karra R, Walter AO, Wu SM | The Journal of clinical investigation | 28650344 | J Clin Invest | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28650344 |
| In Vivo Rescue of the Hematopoietic Niche By Pluripotent Stem Cell Complementation of Defective Osteoblast Compartments. | Chubb R, Oh J, Riley AK, Kimura T, Wu SM, Wu JY | Stem cells (Dayton, Ohio) | 28741855 | Stem Cells | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28741855 |
| Integrative Analysis of PRKAG2 Cardiomyopathy iPS and Microtissue Models Identifies AMPK as a Regulator of Metabolism, Survival, and Fibrosis. | Hinson JT, Chopra A, Lowe A, Sheng CC, Gupta RM, Kuppusamy R, O'Sullivan J, Rowe G, Wakimoto H, Gorham J, Burke MA, Zhang K, Musunuru K, Gerszten RE, Wu SM, Chen CS, Seidman JG, Seidman CE | Cell reports | 28009297 | Cell Rep | 2016 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/28009297 |
| Transcriptomic Profiling of the Developing Cardiac Conduction System at Single-Cell Resolution. | Goodyer WR, Beyersdorf BM, Paik DT, Tian L, Li G, Buikema JW, Chirikian O, Choi S, Venkatraman S, Adams EL, Tessier-Lavigne M, Wu JC, Wu SM | Circulation research | 31284824 | Circ Res | 2019 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/31284824 |
| Simple Lithography-Free Single Cell Micropatterning using Laser-Cut Stencils. | Lee S, Yang H, Chen C, Venkatraman S, Darsha A, Wu SM, Wu JC, Seeger T | Journal of visualized experiments : JoVE | 32310234 | J Vis Exp | 2020 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/32310234 |
| devCellPy is a machine learning-enabled pipeline for automated annotation of complex multilayered single-cell transcriptomic data. | Galdos FX, Xu S, Goodyer WR, Duan L, Huang YV, Lee S, Zhu H, Lee C, Wei N, Lee D, Wu SM | Nature communications | 36071107 | Nat Commun | 2022 Sep 7 | https://www.ncbi.nlm.nih.gov/pubmed/36071107 |
| Fetal Mammalian Heart Generates a Robust Compensatory Response to Cell Loss. | Sturzu AC, Rajarajan K, Passer D, Plonowska K, Riley A, Tan TC, Sharma A, Xu AF, Engels MC, Feistritzer R, Li G, Selig MK, Geissler R, Robertson KD, Scherrer-Crosbie M, Domian IJ, Wu SM | Circulation | 25995316 | Circulation | 2015 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/25995316 |
| Regenerative Medicine: Potential Mechanisms of Cardiac Recovery in Takotsubo Cardiomyopathy. | Chang AY, Kittle JT, Wu SM | Current treatment options in cardiovascular medicine | 26874708 | Curr Treat Options Cardiovasc Med | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26874708 |
| Single-Cell Delineation of Who's on First and Second Heart Fields During Development. | Galdos FX, Wu SM | Circulation research | 31518166 | Circ Res | 2019 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/31518166 |
| Massive expansion and cryopreservation of functional human induced pluripotent stem cell-derived cardiomyocytes. | Maas RGC, Lee S, Harakalova M, Snijders Blok CJB, Goodyer WR, Hjortnaes J, Doevendans PAFM, Van Laake LW, van der Velden J, Asselbergs FW, Wu JC, Sluijter JPG, Wu SM, Buikema JW | STAR protocols | 33615277 | STAR Protoc | 2021 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/33615277 |
| Small RNAs make big impact in cardiac repair. | Krane M, Deutsch MA, Doppler S, Lange R, Wu SM | Circulation research | 25634967 | Circ Res | 2015 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/25634967 |
| Contractile force generation by 3D hiPSC-derived cardiac tissues is enhanced by rapid establishment of cellular interconnection in matrix with muscle-mimicking stiffness. | Lee S, Serpooshan V, Tong X, Venkatraman S, Lee M, Lee J, Chirikian O, Wu JC, Wu SM, Yang F | Biomaterials | 28384492 | Biomaterials | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28384492 |
| Determining host metabolic limitations on viral replication via integrated modeling and experimental perturbation. | Birch EW, Ruggero NA, Covert MW | PLoS computational biology | 23093930 | PLoS Comput Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23093930 |
| Measuring Signaling and RNA-Seq in the Same Cell Links Gene Expression to Dynamic Patterns of NF-κB Activation. | Lane K, Van Valen D, DeFelice MM, Macklin DN, Kudo T, Jaimovich A, Carr A, Meyer T, Pe'er D, Boutet SC, Covert MW | Cell systems | 28396000 | Cell Syst | 2017 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/28396000 |
| Incorporation of flexible objectives and time-linked simulation with flux balance analysis. | Birch EW, Udell M, Covert MW | Journal of theoretical biology | 24361328 | J Theor Biol | 2014 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/24361328 |
| The evolution and functional repertoire of translation proteins following the origin of life. | Goldman AD, Samudrala R, Baross JA | Biology direct | 20377891 | Biol Direct | 2010 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/20377891 |
| Solution study of engineered quartz binding peptides using replica exchange molecular dynamics. | Notman R, Oren EE, Tamerler C, Sarikaya M, Samudrala R, Walsh TR | Biomacromolecules | 20964422 | Biomacromolecules | 2010 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/20964422 |
| Viral linkage in HIV-1 seroconverters and their partners in an HIV-1 prevention clinical trial. | Campbell MS, Mullins JI, Hughes JP, Celum C, Wong KG, Raugi DN, Sorensen S, Stoddard JN, Zhao H, Deng W, Kahle E, Panteleeff D, Baeten JM, McCutchan FE, Albert J, Leitner T, Wald A, Corey L, Lingappa JR, Partners in Prevention HSV/HIV Transmission Study Team | PloS one | 21399681 | PLoS One | 2011 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/21399681 |
| Distal effect of amino acid substitutions in CYP2C9 polymorphic variants causes differences in interatomic interactions against (S)-warfarin. | Lertkiatmongkol P, Assawamakin A, White G, Chopra G, Rongnoparut P, Samudrala R, Tongsima S | PloS one | 24023924 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24023924 |
| Data access for the 1,000 Plants (1KP) project. | Matasci N, Hung LH, Yan Z, Carpenter EJ, Wickett NJ, Mirarab S, Nguyen N, Warnow T, Ayyampalayam S, Barker M, Burleigh JG, Gitzendanner MA, Wafula E, Der JP, dePamphilis CW, Roure B, Philippe H, Ruhfel BR, Miles NW, Graham SW, Mathews S, Surek B, Melkonian M, Soltis DE, Soltis PS, Rothfels C, Pokorny L, Shaw JA, DeGironimo L, Stevenson DW, Villarreal JC, Chen T, Kutchan TM, Rolf M, Baucom RS, Deyholos MK, Samudrala R, Tian Z, Wu X, Sun X, Zhang Y, Wang J, Leebens-Mack J, Wong GK | GigaScience | 25625010 | Gigascience | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25625010 |
| Pseudomonas aeruginosa uses a cyclic-di-GMP-regulated adhesin to reinforce the biofilm extracellular matrix. | Borlee BR, Goldman AD, Murakami K, Samudrala R, Wozniak DJ, Parsek MR | Molecular microbiology | 20088866 | Mol Microbiol | 2010 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20088866 |
| A protein sequence meta-functional signature for calcium binding residue prediction. | Horst JA, Samudrala R | Pattern recognition letters | 20824111 | Pattern Recognit Lett | 2010 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/20824111 |
| Viral entry inhibitors block dengue antibody-dependent enhancement in vitro. | Nicholson CO, Costin JM, Rowe DK, Lin L, Jenwitheesuk E, Samudrala R, Isern S, Michael SF | Antiviral research | 21093488 | Antiviral Res | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21093488 |
| Disease risk of missense mutations using structural inference from predicted function. | Horst JA, Wang K, Horst OV, Cunningham ML, Samudrala R | Current protein & peptide science | 20887259 | Curr Protein Pept Sci | 2010 Nov | https://www.ncbi.nlm.nih.gov/pubmed/20887259 |
| Mycobacterium Cytidylate Kinase Appears to Be an Undruggable Target. | Craig JK, Risler JK, Loesch KA, Dong W, Baker D, Barrett LK, Subramanian S, Samudrala R, Van Voorhis WC | Journal of biomolecular screening | 27146385 | J Biomol Screen | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27146385 |
| Composite Sequence-Structure Stability Models as Screening Tools for Identifying Vulnerable Targets for HIV Drug and Vaccine Development. | Manocheewa S, Mittler JE, Samudrala R, Mullins JI | Viruses | 26556362 | Viruses | 2015 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/26556362 |
| Computational prediction of type III and IV secreted effectors in gram-negative bacteria. | McDermott JE, Corrigan A, Peterson E, Oehmen C, Niemann G, Cambronne ED, Sharp D, Adkins JN, Samudrala R, Heffron F | Infection and immunity | 20974833 | Infect Immun | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/20974833 |
| Caries induced cytokine network in the odontoblast layer of human teeth. | Horst OV, Horst JA, Samudrala R, Dale BA | BMC immunology | 21261944 | BMC Immunol | 2011 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/21261944 |
| Evolutionary transients in the rice transcriptome. | Wang J, Zhang J, Li R, Zheng H, Li J, Zhang Y, Li H, Ni P, Li S, Li S, Wang J, Liu D, McDermott J, Samudrala R, Liu S, Wang J, Yang H, Yu J, Wong GK | Genomics, proteomics & bioinformatics | 21382590 | Genomics Proteomics Bioinformatics | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21382590 |
| Structural optimization and de novo design of dengue virus entry inhibitory peptides. | Costin JM, Jenwitheesuk E, Lok SM, Hunsperger E, Conrads KA, Fontaine KA, Rees CR, Rossmann MG, Isern S, Samudrala R, Michael SF | PLoS neglected tropical diseases | 20582308 | PLoS Negl Trop Dis | 2010 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/20582308 |
| An HIV epidemic model based on viral load dynamics: value in assessing empirical trends in HIV virulence and community viral load. | Herbeck JT, Mittler JE, Gottlieb GS, Mullins JI | PLoS computational biology | 24945322 | PLoS Comput Biol | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24945322 |
| Adhesion and fusion efficiencies of human immunodeficiency virus type 1 (HIV-1) surface proteins. | Dobrowsky TM, Rabi SA, Nedellec R, Daniels BR, Mullins JI, Mosier DE, Siliciano RF, Wirtz D | Scientific reports | 24145278 | Sci Rep | 2013 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/24145278 |
| IGF1R variants associated with isolated single suture craniosynostosis. | Cunningham ML, Horst JA, Rieder MJ, Hing AV, Stanaway IB, Park SS, Samudrala R, Speltz ML | American journal of medical genetics. Part A | 21204214 | Am J Med Genet A | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21204214 |
| Probing the molecular mechanisms of quartz-binding peptides. | Oren EE, Notman R, Kim IW, Evans JS, Walsh TR, Samudrala R, Tamerler C, Sarikaya M | Langmuir : the ACS journal of surfaces and colloids | 20499870 | Langmuir | 2010 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/20499870 |
| GPU-Q-J, a fast method for calculating root mean square deviation (RMSD) after optimal superposition. | Hung LH, Guerquin M, Samudrala R | BMC research notes | 21453553 | BMC Res Notes | 2011 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/21453553 |
| A generalized knowledge-based discriminatory function for biomolecular interactions. | Bernard B, Samudrala R | Proteins | 19127590 | Proteins | 2009 Jul | https://www.ncbi.nlm.nih.gov/pubmed/19127590 |
| fast_protein_cluster: parallel and optimized clustering of large-scale protein modeling data. | Hung LH, Samudrala R | Bioinformatics (Oxford, England) | 24532722 | Bioinformatics | 2014 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/24532722 |
| Low-bias ncRNA libraries using ordered two-template relay: Serial template jumping by a modified retroelement reverse transcriptase. | Upton HE, Ferguson L, Temoche-Diaz MM, Liu XM, Pimentel SC, Ingolia NT, Schekman R, Collins K | Proceedings of the National Academy of Sciences of the United States of America | 34649994 | Proc Natl Acad Sci U S A | 2021 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/34649994 |
| Conserved and divergent DNA recognition specificities and functions of R2 retrotransposon N-terminal domains. | Lee RJ, Horton CA, Van Treeck B, McIntyre JJR, Collins K | Cell reports | 38753487 | Cell Rep | 2024 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/38753487 |
| Nanopore molecular trajectories of a eukaryotic reverse transcriptase reveal a long-range RNA structure sensing mechanism. | Shaw A, Craig JM, Amiri H, Kim J, Upton HE, Pimentel SC, Huang JR, Marqusee S, Collins K, Gundlach JH, Bustamante CJ | bioRxiv : the preprint server for biology | 37066208 | bioRxiv | 2023 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/37066208 |
| Structures of vertebrate R2 retrotransposon complexes during target-primed reverse transcription and after second strand nicking. | Thawani A, Rodríguez-Vargas A, Van Treeck B, Hassan NT, Adelson DL, Nogales E, Collins K | bioRxiv : the preprint server for biology | 39605677 | bioRxiv | 2024 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/39605677 |
| eIF3 engages with 3'-UTR termini of highly translated mRNAs. | Mestre-Fos S, Ferguson L, Trinidad MI, Ingolia NT, Cate JHD | eLife | 39879133 | Elife | 2025 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/39879133 |
| Separable structural requirements for cDNA synthesis, nontemplated extension, and template jumping by a non-LTR retroelement reverse transcriptase. | Pimentel SC, Upton HE, Collins K | The Journal of biological chemistry | 35065960 | J Biol Chem | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35065960 |
| Improved precision, sensitivity, and adaptability of Ordered Two-Template Relay cDNA library preparation for RNA sequencing. | Ferguson L, Upton HE, Pimentel SC, Jeans C, Ingolia NT, Collins K | bioRxiv : the preprint server for biology | 39574714 | bioRxiv | 2024 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/39574714 |
| Improved precision, sensitivity, and adaptability of ordered two-template relay cDNA library preparation for RNA sequencing. | Ferguson L, Upton HE, Pimentel SC, Jeans C, Ingolia NT, Collins K | RNA (New York, N.Y.) | 39626888 | RNA | 2025 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/39626888 |
| Structures of vertebrate R2 retrotransposon complexes during target-primed reverse transcription and after second-strand nicking. | Thawani A, Rodríguez-Vargas A, Van Treeck B, Hassan NT, Adelson DL, Nogales E, Collins K | Science advances | 40540573 | Sci Adv | 2025 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/40540573 |
| Distinct and overlapping RNA determinants for binding and target-primed reverse transcription by Bombyx mori R2 retrotransposon protein. | Rodríguez-Vargas A, Collins K | Nucleic acids research | 38499488 | Nucleic Acids Res | 2024 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/38499488 |
| eIF3 engages with 3'-UTR termini of highly translated mRNAs. | Mestre-Fos S, Ferguson L, Trinidad M, Ingolia NT, Cate JHD | bioRxiv : the preprint server for biology | 37986910 | bioRxiv | 2024 Nov 24 | https://www.ncbi.nlm.nih.gov/pubmed/37986910 |
| Structure of human telomerase holoenzyme with bound telomeric DNA. | Ghanim GE, Fountain AJ, van Roon AM, Rangan R, Das R, Collins K, Nguyen THD | Nature | 33883742 | Nature | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33883742 |
| Streamlined and sensitive mono- and di-ribosome profiling in yeast and human cells. | Ferguson L, Upton HE, Pimentel SC, Mok A, Lareau LF, Collins K, Ingolia NT | Nature methods | 37783882 | Nat Methods | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37783882 |
| Harnessing eukaryotic retroelement proteins for transgene insertion into human safe-harbor loci. | Zhang X, Van Treeck B, Horton CA, McIntyre JJR, Palm SM, Shumate JL, Collins K | Nature biotechnology | 38379101 | Nat Biotechnol | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38379101 |
| Template and target-site recognition by human LINE-1 in retrotransposition. | Thawani A, Florez Ariza AJ, Nogales E, Collins K | Nature | 38096901 | Nature | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38096901 |
| Structure and sequence at an RNA template 5' end influence insertion of transgenes by an R2 retrotransposon protein. | Palm SM, Horton CA, Zhang X, Collins K | RNA (New York, N.Y.) | 38960642 | RNA | 2024 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/38960642 |
| RNA editing with CRISPR-Cas13. | Cox DBT, Gootenberg JS, Abudayyeh OO, Franklin B, Kellner MJ, Joung J, Zhang F | Science (New York, N.Y.) | 29070703 | Science | 2017 Nov 24 | https://www.ncbi.nlm.nih.gov/pubmed/29070703 |
| Genomic determinants of pathogenicity in SARS-CoV-2 and other human coronaviruses. | Gussow AB, Auslander N, Faure G, Wolf YI, Zhang F, Koonin EV | Proceedings of the National Academy of Sciences of the United States of America | 32522874 | Proc Natl Acad Sci U S A | 2020 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/32522874 |
| Dual modes of CRISPR-associated transposon homing. | Saito M, Ladha A, Strecker J, Faure G, Neumann E, Altae-Tran H, Macrae RK, Zhang F | Cell | 33770501 | Cell | 2021 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/33770501 |
| Detection of SARS-CoV-2 with SHERLOCK One-Pot Testing. | Joung J, Ladha A, Saito M, Kim NG, Woolley AE, Segel M, Barretto RPJ, Ranu A, Macrae RK, Faure G, Ioannidi EI, Krajeski RN, Bruneau R, Huang MW, Yu XG, Li JZ, Walker BD, Hung DT, Greninger AL, Jerome KR, Gootenberg JS, Abudayyeh OO, Zhang F | The New England journal of medicine | 32937062 | N Engl J Med | 2020 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/32937062 |
| CRISPR-Based Therapeutic Genome Editing: Strategies and In Vivo Delivery by AAV Vectors. | Wang D, Zhang F, Gao G | Cell | 32243786 | Cell | 2020 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/32243786 |
| UG/Abi: a highly diverse family of prokaryotic reverse transcriptases associated with defense functions. | Mestre MR, Gao LA, Shah SA, López-Beltrán A, González-Delgado A, Martínez-Abarca F, Iranzo J, Redrejo-Rodríguez M, Zhang F, Toro N | Nucleic acids research | 35648479 | Nucleic Acids Res | 2022 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/35648479 |
| Structure of the OMEGA nickase IsrB in complex with ωRNA and target DNA. | Hirano S, Kappel K, Altae-Tran H, Faure G, Wilkinson ME, Kannan S, Demircioglu FE, Yan R, Shiozaki M, Yu Z, Makarova KS, Koonin EV, Macrae RK, Zhang F | Nature | 36224386 | Nature | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36224386 |
| CRISPR activation screen identifies BCL-2 proteins and B3GNT2 as drivers of cancer resistance to T cell-mediated cytotoxicity. | Joung J, Kirchgatterer PC, Singh A, Cho JH, Nety SP, Larson RC, Macrae RK, Deasy R, Tseng YY, Maus MV, Zhang F | Nature communications | 35338135 | Nat Commun | 2022 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/35338135 |
| DNA Microscopy: Optics-free Spatio-genetic Imaging by a Stand-Alone Chemical Reaction. | Weinstein JA, Regev A, Zhang F | Cell | 31230717 | Cell | 2019 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/31230717 |
| Optical Pooled Screens in Human Cells. | Feldman D, Singh A, Schmid-Burgk JL, Carlson RJ, Mezger A, Garrity AJ, Zhang F, Blainey PC | Cell | 31626775 | Cell | 2019 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/31626775 |
| Highly Parallel Profiling of Cas9 Variant Specificity. | Schmid-Burgk JL, Gao L, Li D, Gardner Z, Strecker J, Lash B, Zhang F | Molecular cell | 32187529 | Mol Cell | 2020 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/32187529 |
| Nucleic Acid Detection of Plant Genes Using CRISPR-Cas13. | Abudayyeh OO, Gootenberg JS, Kellner MJ, Zhang F | The CRISPR journal | 31225754 | CRISPR J | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31225754 |
| Effects of 3D culturing conditions on the transcriptomic profile of stem-cell-derived neurons. | Tekin H, Simmons S, Cummings B, Gao L, Adiconis X, Hession CC, Ghoshal A, Dionne D, Choudhury SR, Yesilyurt V, Sanjana NE, Shi X, Lu C, Heidenreich M, Pan JQ, Levin JZ, Zhang F | Nature biomedical engineering | 30271673 | Nat Biomed Eng | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30271673 |
| Field-deployable viral diagnostics using CRISPR-Cas13. | Myhrvold C, Freije CA, Gootenberg JS, Abudayyeh OO, Metsky HC, Durbin AF, Kellner MJ, Tan AL, Paul LM, Parham LA, Garcia KF, Barnes KG, Chak B, Mondini A, Nogueira ML, Isern S, Michael SF, Lorenzana I, Yozwiak NL, MacInnis BL, Bosch I, Gehrke L, Zhang F, Sabeti PC | Science (New York, N.Y.) | 29700266 | Science | 2018 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/29700266 |
| RNA-guided DNA insertion with CRISPR-associated transposases. | Strecker J, Ladha A, Gardner Z, Schmid-Burgk JL, Makarova KS, Koonin EV, Zhang F | Science (New York, N.Y.) | 31171706 | Science | 2019 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/31171706 |
| RNA-activated protein cleavage with a CRISPR-associated endopeptidase. | Strecker J, Demircioglu FE, Li D, Faure G, Wilkinson ME, Gootenberg JS, Abudayyeh OO, Nishimasu H, Macrae RK, Zhang F | Science (New York, N.Y.) | 36423276 | Science | 2022 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/36423276 |
| Mammalian retrovirus-like protein PEG10 packages its own mRNA and can be pseudotyped for mRNA delivery. | Segel M, Lash B, Song J, Ladha A, Liu CC, Jin X, Mekhedov SL, Macrae RK, Koonin EV, Zhang F | Science (New York, N.Y.) | 34413232 | Science | 2021 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/34413232 |
| In vivo Perturb-Seq reveals neuronal and glial abnormalities associated with autism risk genes. | Jin X, Simmons SK, Guo A, Shetty AS, Ko M, Nguyen L, Jokhi V, Robinson E, Oyler P, Curry N, Deangeli G, Lodato S, Levin JZ, Regev A, Zhang F, Arlotta P | Science (New York, N.Y.) | 33243861 | Science | 2020 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/33243861 |
| Programmable Inhibition and Detection of RNA Viruses Using Cas13. | Freije CA, Myhrvold C, Boehm CK, Lin AE, Welch NL, Carter A, Metsky HC, Luo CY, Abudayyeh OO, Gootenberg JS, Yozwiak NL, Zhang F, Sabeti PC | Molecular cell | 31607545 | Mol Cell | 2019 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/31607545 |
| Ongoing global and regional adaptive evolution of SARS-CoV-2. | Rochman ND, Wolf YI, Faure G, Mutz P, Zhang F, Koonin EV | Proceedings of the National Academy of Sciences of the United States of America | 34292871 | Proc Natl Acad Sci U S A | 2021 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/34292871 |
| Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6. | Gootenberg JS, Abudayyeh OO, Kellner MJ, Joung J, Collins JJ, Zhang F | Science (New York, N.Y.) | 29449508 | Science | 2018 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/29449508 |
| Mapping a functional cancer genome atlas of tumor suppressors in mouse liver using AAV-CRISPR-mediated direct in vivo screening. | Wang G, Chow RD, Ye L, Guzman CD, Dai X, Dong MB, Zhang F, Sharp PA, Platt RJ, Chen S | Science advances | 29503867 | Sci Adv | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29503867 |
| High-Resolution Structure of Cas13b and Biochemical Characterization of RNA Targeting and Cleavage. | Slaymaker IM, Mesa P, Kellner MJ, Kannan S, Brignole E, Koob J, Feliciano PR, Stella S, Abudayyeh OO, Gootenberg JS, Strecker J, Montoya G, Zhang F | Cell reports | 30917325 | Cell Rep | 2019 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/30917325 |
| Engineering of CRISPR-Cas12b for human genome editing. | Strecker J, Jones S, Koopal B, Schmid-Burgk J, Zetsche B, Gao L, Makarova KS, Koonin EV, Zhang F | Nature communications | 30670702 | Nat Commun | 2019 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/30670702 |
| Pluripotent stem cell-derived models of neurological diseases reveal early transcriptional heterogeneity. | Sorek M, Oweis W, Nissim-Rafinia M, Maman M, Simon S, Hession CC, Adiconis X, Simmons SK, Sanjana NE, Shi X, Lu C, Pan JQ, Xu X, Pouladi MA, Ellerby LM, Zhang F, Levin JZ, Meshorer E | Genome biology | 33663567 | Genome Biol | 2021 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/33663567 |
| The widespread IS200/IS605 transposon family encodes diverse programmable RNA-guided endonucleases. | Altae-Tran H, Kannan S, Demircioglu FE, Oshiro R, Nety SP, McKay LJ, Dlakić M, Inskeep WP, Makarova KS, Macrae RK, Koonin EV, Zhang F | Science (New York, N.Y.) | 34591643 | Science | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34591643 |
| Microfluidic Enrichment and Computational Analysis of Rare Sequences from Mixed Genomic Samples for Metagenomic Mining. | Cui N, Faure G, Singh A, Macrae R, Zhang F | The CRISPR journal | 36206017 | CRISPR J | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36206017 |
| Diverse enzymatic activities mediate antiviral immunity in prokaryotes. | Gao L, Altae-Tran H, Böhning F, Makarova KS, Segel M, Schmid-Burgk JL, Koob J, Wolf YI, Koonin EV, Zhang F | Science (New York, N.Y.) | 32855333 | Science | 2020 Aug 28 | https://www.ncbi.nlm.nih.gov/pubmed/32855333 |
| Structure and engineering of the minimal type VI CRISPR-Cas13bt3. | Nakagawa R, Kannan S, Altae-Tran H, Takeda SN, Tomita A, Hirano H, Kusakizako T, Nishizawa T, Yamashita K, Zhang F, Nishimasu H, Nureki O | Molecular cell | 36027912 | Mol Cell | 2022 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/36027912 |
| Prokaryotic innate immunity through pattern recognition of conserved viral proteins. | Gao LA, Wilkinson ME, Strecker J, Makarova KS, Macrae RK, Koonin EV, Zhang F | Science (New York, N.Y.) | 35951700 | Science | 2022 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/35951700 |
| Compact RNA editors with small Cas13 proteins. | Kannan S, Altae-Tran H, Jin X, Madigan VJ, Oshiro R, Makarova KS, Koonin EV, Zhang F | Nature biotechnology | 34462587 | Nat Biotechnol | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/34462587 |
| Unexpected connections between type VI-B CRISPR-Cas systems, bacterial natural competence, ubiquitin signaling network and DNA modification through a distinct family of membrane proteins. | Makarova KS, Gao L, Zhang F, Koonin EV | FEMS microbiology letters | 31089700 | FEMS Microbiol Lett | 2019 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/31089700 |
| The evolution of red color vision is linked to coordinated rhodopsin tuning in lycaenid butterflies. | Liénard MA, Bernard GD, Allen A, Lassance JM, Song S, Childers RR, Yu N, Ye D, Stephenson A, Valencia-Montoya WA, Salzman S, Whitaker MRL, Calonje M, Zhang F, Pierce NE | Proceedings of the National Academy of Sciences of the United States of America | 33547236 | Proc Natl Acad Sci U S A | 2021 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/33547236 |
| LAMP-Seq enables sensitive, multiplexed COVID-19 diagnostics using molecular barcoding. | Ludwig KU, Schmithausen RM, Li D, Jacobs ML, Hollstein R, Blumenstock K, Liebing J, Słabicki M, Ben-Shmuel A, Israeli O, Weiss S, Ebert TS, Paran N, Rüdiger W, Wilbring G, Feldman D, Lippke B, Ishorst N, Hochfeld LM, Beins EC, Kaltheuner IH, Schmitz M, Wöhler A, Döhla M, Sib E, Jentzsch M, Moench EC, Borrajo JD, Strecker J, Reinhardt J, Cleary B, Geyer M, Hölzel M, Macrae R, Nöthen MM, Hoffmann P, Exner M, Regev A, Zhang F, Schmid-Burgk JL | Nature biotechnology | 34188222 | Nat Biotechnol | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34188222 |
| A transcription factor atlas of directed differentiation. | Joung J, Ma S, Tay T, Geiger-Schuller KR, Kirchgatterer PC, Verdine VK, Guo B, Arias-Garcia MA, Allen WE, Singh A, Kuksenko O, Abudayyeh OO, Gootenberg JS, Fu Z, Macrae RK, Buenrostro JD, Regev A, Zhang F | Cell | 36608654 | Cell | 2023 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/36608654 |
| Arrhythmia risk stratification of patients after myocardial infarction using personalized heart models. | Arevalo HJ, Vadakkumpadan F, Guallar E, Jebb A, Malamas P, Wu KC, Trayanova NA | Nature communications | 27164184 | Nat Commun | 2016 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/27164184 |
| Modeling the aging heart: from local respiratory defects to global rhythm disturbances. | Khrapko K, Trayanova N, Nattel S | Cell metabolism | 25955202 | Cell Metab | 2015 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/25955202 |
| How computer simulations of the human heart can improve anti-arrhythmia therapy. | Trayanova NA, Chang KC | The Journal of physiology | 26621489 | J Physiol | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/26621489 |
| Image-based Reconstruction of 3D Myocardial Infarct Geometry for Patient Specific Applications. | Ukwatta E, Rajchl M, White J, Pashakhanloo F, Herzka DA, McVeigh E, Lardo AC, Trayanova N, Vadakkumpadan F | Proceedings of SPIE--the International Society for Optical Engineering | 26633913 | Proc SPIE Int Soc Opt Eng | 2015 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/26633913 |
| A New MRI-Based Model of Heart Function with Coupled Hemodynamics and Application to Normal and Diseased Canine Left Ventricles. | Choi YJ, Constantino J, Vedula V, Trayanova N, Mittal R | Frontiers in bioengineering and biotechnology | 26442254 | Front Bioeng Biotechnol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26442254 |
| Efficient preloading of the ventricles by a properly timed atrial contraction underlies stroke work improvement in the acute response to cardiac resynchronization therapy. | Hu Y, Gurev V, Constantino J, Trayanova N | Heart rhythm | 23928177 | Heart Rhythm | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23928177 |
| Computational modeling of aberrant electrical activity following remuscularization with intramyocardially injected pluripotent stem cell-derived cardiomyocytes. | Yu JK, Liang JA, Weinberg SH, Trayanova NA | Journal of molecular and cellular cardiology | 34487753 | J Mol Cell Cardiol | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34487753 |
| Using personalized computer models to custom-tailor ablation procedures for atrial fibrillation patients: are we there yet? | Boyle PM, Zahid S, Trayanova NA | Expert review of cardiovascular therapy | 28395557 | Expert Rev Cardiovasc Ther | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28395557 |
| Submillimeter diffusion tensor imaging and late gadolinium enhancement cardiovascular magnetic resonance of chronic myocardial infarction. | Pashakhanloo F, Herzka DA, Mori S, Zviman M, Halperin H, Gai N, Bluemke DA, Trayanova NA, McVeigh ER | Journal of cardiovascular magnetic resonance : official journal of the Society for Cardiovascular Magnetic Resonance | 28122618 | J Cardiovasc Magn Reson | 2017 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/28122618 |
| Spatial dispersion analysis of LGE-CMR for prediction of ventricular arrhythmias in patients with cardiac sarcoidosis. | Aronis KN, Okada DR, Xie E, Daimee UA, Prakosa A, Gilotra NA, Wu KC, Trayanova N, Chrispin J | Pacing and clinical electrophysiology : PACE | 34766627 | Pacing Clin Electrophysiol | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34766627 |
| Association of left atrial epicardial adipose tissue with electrogram bipolar voltage and fractionation: Electrophysiologic substrates for atrial fibrillation. | Zghaib T, Ipek EG, Zahid S, Balouch MA, Misra S, Ashikaga H, Berger RD, Marine JE, Spragg DD, Zimmerman SL, Zipunnikov V, Trayanova N, Calkins H, Nazarian S | Heart rhythm | 27546816 | Heart Rhythm | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27546816 |
| Virtual 3D heart models to aid pacemaker implantation in children. | Trayanova NA | Future cardiology | 24344653 | Future Cardiol | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24344653 |
| Advances in modeling ventricular arrhythmias: from mechanisms to the clinic. | Trayanova NA, Boyle PM | Wiley interdisciplinary reviews. Systems biology and medicine | 24375958 | Wiley Interdiscip Rev Syst Biol Med | 2014 Mar-Apr | https://www.ncbi.nlm.nih.gov/pubmed/24375958 |
| Mechanisms of arrhythmogenesis related to calcium-driven alternans in a model of human atrial fibrillation. | Chang KC, Trayanova NA | Scientific reports | 27812021 | Sci Rep | 2016 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/27812021 |
| Personalized virtual-heart technology for guiding the ablation of infarct-related ventricular tachycardia. | Prakosa A, Arevalo HJ, Deng D, Boyle PM, Nikolov PP, Ashikaga H, Blauer JJE, Ghafoori E, Park CJ, Blake RC 3rd, Han FT, MacLeod RS, Halperin HR, Callans DJ, Ranjan R, Chrispin J, Nazarian S, Trayanova NA | Nature biomedical engineering | 30847259 | Nat Biomed Eng | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30847259 |
| Computationally guided personalized targeted ablation of persistent atrial fibrillation. | Boyle PM, Zghaib T, Zahid S, Ali RL, Deng D, Franceschi WH, Hakim JB, Murphy MJ, Prakosa A, Zimmerman SL, Ashikaga H, Marine JE, Kolandaivelu A, Nazarian S, Spragg DD, Calkins H, Trayanova NA | Nature biomedical engineering | 31427780 | Nat Biomed Eng | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31427780 |
| Epicardial Conduction Speed, Electrogram Abnormality, and Computed Tomography Attenuation Associations in Arrhythmogenic Right Ventricular Cardiomyopathy. | Ustunkaya T, Desjardins B, Wedan R, Chahal CAA, Zimmerman SL, Saju N, Zahid S, Sharma A, Han Y, Trayanova N, Marchlinski FE, Calkins H, Tandri H, Nazarian S | JACC. Clinical electrophysiology | 31648740 | JACC Clin Electrophysiol | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31648740 |
| Characterizing Conduction Channels in Postinfarction Patients Using a Personalized Virtual Heart. | Deng D, Prakosa A, Shade J, Nikolov P, Trayanova NA | Biophysical journal | 31447108 | Biophys J | 2019 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/31447108 |
| Sodium current reduction unmasks a structure-dependent substrate for arrhythmogenesis in the normal ventricles. | Boyle PM, Park CJ, Arevalo HJ, Vigmond EJ, Trayanova NA | PloS one | 24489810 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24489810 |
| Precisely parameterized experimental and computational models of tissue organization. | Molitoris JM, Paliwal S, Sekar RB, Blake R, Park J, Trayanova NA, Tung L, Levchenko A | Integrative biology : quantitative biosciences from nano to macro | 26822672 | Integr Biol (Camb) | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26822672 |
| Myofiber Architecture of the Human Atria as Revealed by Submillimeter Diffusion Tensor Imaging. | Pashakhanloo F, Herzka DA, Ashikaga H, Mori S, Gai N, Bluemke DA, Trayanova NA, McVeigh ER | Circulation. Arrhythmia and electrophysiology | 27071829 | Circ Arrhythm Electrophysiol | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27071829 |
| Computational modeling of cardiac optogenetics: Methodology overview & review of findings from simulations. | Boyle PM, Karathanos TV, Entcheva E, Trayanova NA | Computers in biology and medicine | 26002074 | Comput Biol Med | 2015 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/26002074 |
| Optogenetics-enabled assessment of viral gene and cell therapy for restoration of cardiac excitability. | Ambrosi CM, Boyle PM, Chen K, Trayanova NA, Entcheva E | Scientific reports | 26621212 | Sci Rep | 2015 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/26621212 |
| Corrigendum to "effects of fibrosis morphology on reentrant ventricular tachycardia inducibility and simulation fidelity in patient-derived models". | Ringenberg J, Deo M, Filgueiras-Rama D, Pizarro G, Ibañez B, Peinado R, Trayanova N, Miller M, Merino JL, Berenfeld O, Devabhaktuni V | Clinical Medicine Insights. Cardiology | 25698881 | Clin Med Insights Cardiol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25698881 |
| Computational analysis of the effect of valvular regurgitation on ventricular mechanics using a 3D electromechanics model. | Lim KM, Hong SB, Lee BK, Shim EB, Trayanova N | The journal of physiological sciences : JPS | 25644379 | J Physiol Sci | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25644379 |
| Methodology for image-based reconstruction of ventricular geometry for patient-specific modeling of cardiac electrophysiology. | Prakosa A, Malamas P, Zhang S, Pashakhanloo F, Arevalo H, Herzka DA, Lardo A, Halperin H, McVeigh E, Trayanova N, Vadakkumpadan F | Progress in biophysics and molecular biology | 25148771 | Prog Biophys Mol Biol | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25148771 |
| Substrate Spatial Complexity Analysis for the Prediction of Ventricular Arrhythmias in Patients With Ischemic Cardiomyopathy. | Okada DR, Miller J, Chrispin J, Prakosa A, Trayanova N, Jones S, Maggioni M, Wu KC | Circulation. Arrhythmia and electrophysiology | 32188287 | Circ Arrhythm Electrophysiol | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32188287 |
| A feasibility study of arrhythmia risk prediction in patients with myocardial infarction and preserved ejection fraction. | Deng D, Arevalo HJ, Prakosa A, Callans DJ, Trayanova NA | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 28011832 | Europace | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28011832 |
| Role of 3-Dimensional Architecture of Scar and Surviving Tissue in Ventricular Tachycardia: Insights From High-Resolution Ex Vivo Porcine Models. | Pashakhanloo F, Herzka DA, Halperin H, McVeigh ER, Trayanova NA | Circulation. Arrhythmia and electrophysiology | 29880529 | Circ Arrhythm Electrophysiol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29880529 |
| Ventricular arrhythmia risk prediction in repaired Tetralogy of Fallot using personalized computational cardiac models. | Shade JK, Cartoski MJ, Nikolov P, Prakosa A, Doshi A, Binka E, Olivieri L, Boyle PM, Spevak PJ, Trayanova NA | Heart rhythm | 31589989 | Heart Rhythm | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31589989 |
| Initiation of a High-Frequency Jet Ventilation Strategy for Catheter Ablation for Atrial Fibrillation: Safety and Outcomes Data. | Sivasambu B, Hakim JB, Barodka V, Chrispin J, Berger RD, Ashikaga H, Ciuffo L, Tao S, Calkins H, Marine JE, Trayanova N, Spragg DD | JACC. Clinical electrophysiology | 30573114 | JACC Clin Electrophysiol | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30573114 |
| Degradation of T-Tubular Microdomains and Altered cAMP Compartmentation Lead to Emergence of Arrhythmogenic Triggers in Heart Failure Myocytes: An in silico Study. | Loucks AD, O'Hara T, Trayanova NA | Frontiers in physiology | 30564142 | Front Physiol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30564142 |
| Optimal contrast-enhanced MRI image thresholding for accurate prediction of ventricular tachycardia using ex-vivo high resolution models. | Deng D, Nikolov P, Arevalo HJ, Trayanova NA | Computers in biology and medicine | 30301573 | Comput Biol Med | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30301573 |
| Biological substrate modification suppresses ventricular arrhythmias in a porcine model of chronic ischaemic cardiomyopathy. | Dawkins JF, Ehdaie A, Rogers R, Soetkamp D, Valle J, Holm K, Sanchez L, Tremmel I, Nawaz A, Shehata M, Wang X, Prakosa A, Yu J, Van Eyk JE, Trayanova N, Marbán E, Cingolani E | European heart journal | 35262692 | Eur Heart J | 2022 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/35262692 |
| Myofilament protein dynamics modulate EAD formation in human hypertrophic cardiomyopathy. | Zile MA, Trayanova NA | Progress in biophysics and molecular biology | 28648627 | Prog Biophys Mol Biol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28648627 |
| Effect of KCNQ1 G229D mutation on cardiac pumping efficacy and reentrant dynamics in ventricles: Computational study. | Yuniarti AR, Setianto F, Marcellinus A, Hwang HJ, Choi SW, Trayanova N, Lim KM | International journal for numerical methods in biomedical engineering | 29488358 | Int J Numer Method Biomed Eng | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29488358 |
| Relationship Between Fibrosis Detected on Late Gadolinium-Enhanced Cardiac Magnetic Resonance and Re-Entrant Activity Assessed With Electrocardiographic Imaging in Human Persistent Atrial Fibrillation. | Cochet H, Dubois R, Yamashita S, Al Jefairi N, Berte B, Sellal JM, Hooks D, Frontera A, Amraoui S, Zemoura A, Denis A, Derval N, Sacher F, Corneloup O, Latrabe V, Clément-Guinaudeau S, Relan J, Zahid S, Boyle PM, Trayanova NA, Bernus O, Montaudon M, Laurent F, Hocini M, Haïssaguerre M, Jaïs P | JACC. Clinical electrophysiology | 29479568 | JACC Clin Electrophysiol | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29479568 |
| New insights on the cardiac safety factor: Unraveling the relationship between conduction velocity and robustness of propagation. | Boyle PM, Franceschi WH, Constantin M, Hawks C, Desplantez T, Trayanova NA, Vigmond EJ | Journal of molecular and cellular cardiology | 30677394 | J Mol Cell Cardiol | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30677394 |
| Spatially Adaptive Multi-Scale Optimization for Local Parameter Estimation in Cardiac Electrophysiology. | Dhamala J, Arevalo HJ, Sapp J, Horacek M, Wu KC, Trayanova NA, Wang L | IEEE transactions on medical imaging | 28459685 | IEEE Trans Med Imaging | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28459685 |
| Sensitivity of Ablation Targets Prediction to Electrophysiological Parameter Variability in Image-Based Computational Models of Ventricular Tachycardia in Post-infarction Patients. | Deng D, Prakosa A, Shade J, Nikolov P, Trayanova NA | Frontiers in physiology | 31178758 | Front Physiol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31178758 |
| Optogenetics-enabled dynamic modulation of action potential duration in atrial tissue: feasibility of a novel therapeutic approach. | Karathanos TV, Boyle PM, Trayanova NA | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 25362173 | Europace | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25362173 |
| Exploring susceptibility to atrial and ventricular arrhythmias resulting from remodeling of the passive electrical properties in the heart: a simulation approach. | Trayanova NA, Boyle PM, Arevalo HJ, Zahid S | Frontiers in physiology | 25429272 | Front Physiol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25429272 |
| Virtual electrophysiological study of atrial fibrillation in fibrotic remodeling. | McDowell KS, Zahid S, Vadakkumpadan F, Blauer J, MacLeod RS, Trayanova NA | PloS one | 25692857 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25692857 |
| Image-based reconstruction of three-dimensional myocardial infarct geometry for patient-specific modeling of cardiac electrophysiology. | Ukwatta E, Arevalo H, Rajchl M, White J, Pashakhanloo F, Prakosa A, Herzka DA, McVeigh E, Lardo AC, Trayanova NA, Vadakkumpadan F | Medical physics | 26233186 | Med Phys | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26233186 |
| Mechanisms linking electrical alternans and clinical ventricular arrhythmia in human heart failure. | Bayer JD, Lalani GG, Vigmond EJ, Narayan SM, Trayanova NA | Heart rhythm | 27215536 | Heart Rhythm | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27215536 |
| Image-based left ventricular shape analysis for sudden cardiac death risk stratification. | Vadakkumpadan F, Trayanova N, Wu KC | Heart rhythm | 24854217 | Heart Rhythm | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24854217 |
| Mathematical approaches to understanding and imaging atrial fibrillation: significance for mechanisms and management. | Trayanova NA | Circulation research | 24763468 | Circ Res | 2014 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/24763468 |
| New insights into defibrillation of the heart from realistic simulation studies. | Trayanova NA, Rantner LJ | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 24798960 | Europace | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24798960 |
| 4D cardiac electromechanical activation imaging. | Grondin J, Wang D, Grubb CS, Trayanova N, Konofagou EE | Computers in biology and medicine | 31476587 | Comput Biol Med | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31476587 |
| Modelling methodology of atrial fibrosis affects rotor dynamics and electrograms. | Roney CH, Bayer JD, Zahid S, Meo M, Boyle PM, Trayanova NA, Haïssaguerre M, Dubois R, Cochet H, Vigmond EJ | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 28011842 | Europace | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28011842 |
| Sensitivity of reentrant driver localization to electrophysiological parameter variability in image-based computational models of persistent atrial fibrillation sustained by a fibrotic substrate. | Deng D, Murphy MJ, Hakim JB, Franceschi WH, Zahid S, Pashakhanloo F, Trayanova NA, Boyle PM | Chaos (Woodbury, N.Y.) | 28964164 | Chaos | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28964164 |
| Increased thin filament activation enhances alternans in human chronic atrial fibrillation. | Zile MA, Trayanova NA | American journal of physiology. Heart and circulatory physiology | 30141984 | Am J Physiol Heart Circ Physiol | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30141984 |
| Tropomyosin dynamics during cardiac muscle contraction as governed by a multi-well energy landscape. | Aboelkassem Y, Trayanova N | Progress in biophysics and molecular biology | 30145015 | Prog Biophys Mol Biol | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30145015 |
| Computational rabbit models to investigate the initiation, perpetuation, and termination of ventricular arrhythmia. | Arevalo HJ, Boyle PM, Trayanova NA | Progress in biophysics and molecular biology | 27334789 | Prog Biophys Mol Biol | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27334789 |
| Imaging-Based Simulations for Predicting Sudden Death and Guiding Ventricular Tachycardia Ablation. | Trayanova NA, Pashakhanloo F, Wu KC, Halperin HR | Circulation. Arrhythmia and electrophysiology | 28696219 | Circ Arrhythm Electrophysiol | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28696219 |
| From genetics to smart watches: developments in precision cardiology. | Trayanova N | Nature reviews. Cardiology | 30568275 | Nat Rev Cardiol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30568275 |
| Virtual electrophysiological study as a tool for evaluating efficacy of MRI techniques in predicting adverse arrhythmic events in ischemic patients. | Ukwatta E, Nikolov P, Zabihollahy F, Trayanova NA, Wright GA | Physics in medicine and biology | 30412472 | Phys Med Biol | 2018 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/30412472 |
| Quantifying the uncertainty in model parameters using Gaussian process-based Markov chain Monte Carlo in cardiac electrophysiology. | Dhamala J, Arevalo HJ, Sapp J, Horácek BM, Wu KC, Trayanova NA, Wang L | Medical image analysis | 29843078 | Med Image Anal | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29843078 |
| Personalized Imaging and Modeling Strategies for Arrhythmia Prevention and Therapy. | Trayanova NA, Boyle PM, Nikolov PP | Current opinion in biomedical engineering | 29546250 | Curr Opin Biomed Eng | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29546250 |
| A comprehensive, multiscale framework for evaluation of arrhythmias arising from cell therapy in the whole post-myocardial infarcted heart. | Yu JK, Franceschi W, Huang Q, Pashakhanloo F, Boyle PM, Trayanova NA | Scientific reports | 31239508 | Sci Rep | 2019 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/31239508 |
| Association of Left Atrial Local Conduction Velocity With Late Gadolinium Enhancement on Cardiac Magnetic Resonance in Patients With Atrial Fibrillation. | Fukumoto K, Habibi M, Ipek EG, Zahid S, Khurram IM, Zimmerman SL, Zipunnikov V, Spragg D, Ashikaga H, Trayanova N, Tomaselli GF, Rickard J, Marine JE, Berger RD, Calkins H, Nazarian S | Circulation. Arrhythmia and electrophysiology | 26917814 | Circ Arrhythm Electrophysiol | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26917814 |
| Opsin spectral sensitivity determines the effectiveness of optogenetic termination of ventricular fibrillation in the human heart: a simulation study. | Karathanos TV, Bayer JD, Wang D, Boyle PM, Trayanova NA | The Journal of physiology | 26941055 | J Physiol | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/26941055 |
| Computational models of heart disease. | Smith N, Trayanova N | Drug discovery today. Disease models | 26843884 | Drug Discov Today Dis Models | 2014 Winter | https://www.ncbi.nlm.nih.gov/pubmed/26843884 |
| Early somatic mosaicism is a rare cause of long-QT syndrome. | Priest JR, Gawad C, Kahlig KM, Yu JK, O'Hara T, Boyle PM, Rajamani S, Clark MJ, Garcia ST, Ceresnak S, Harris J, Boyle S, Dewey FE, Malloy-Walton L, Dunn K, Grove M, Perez MV, Neff NF, Chen R, Maeda K, Dubin A, Belardinelli L, West J, Antolik C, Macaya D, Quertermous T, Trayanova NA, Quake SR, Ashley EA | Proceedings of the National Academy of Sciences of the United States of America | 27681629 | Proc Natl Acad Sci U S A | 2016 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/27681629 |
| Arrhythmogenic propensity of the fibrotic substrate after atrial fibrillation ablation: a longitudinal study using magnetic resonance imaging-based atrial models. | Ali RL, Hakim JB, Boyle PM, Zahid S, Sivasambu B, Marine JE, Calkins H, Trayanova NA, Spragg DD | Cardiovascular research | 30977811 | Cardiovasc Res | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/30977811 |
| The role of personalized atrial modeling in understanding atrial fibrillation mechanisms and improving treatment. | Aronis KN, Ali R, Trayanova NA | International journal of cardiology | 30755334 | Int J Cardiol | 2019 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/30755334 |
| Characterization of the Electrophysiologic Remodeling of Patients With Ischemic Cardiomyopathy by Clinical Measurements and Computer Simulations Coupled With Machine Learning. | Aronis KN, Prakosa A, Bergamaschi T, Berger RD, Boyle PM, Chrispin J, Ju S, Marine JE, Sinha S, Tandri H, Ashikaga H, Trayanova NA | Frontiers in physiology | 34335294 | Front Physiol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34335294 |
| Caveolin-3 regulates compartmentation of cardiomyocyte beta2-adrenergic receptor-mediated cAMP signaling. | Wright PT, Nikolaev VO, O'Hara T, Diakonov I, Bhargava A, Tokar S, Schobesberger S, Shevchuk AI, Sikkel MB, Wilkinson R, Trayanova NA, Lyon AR, Harding SE, Gorelik J | Journal of molecular and cellular cardiology | 24345421 | J Mol Cell Cardiol | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24345421 |
| Feasibility of using patient-specific models and the "minimum cut" algorithm to predict optimal ablation targets for left atrial flutter. | Zahid S, Whyte KN, Schwarz EL, Blake RC 3rd, Boyle PM, Chrispin J, Prakosa A, Ipek EG, Pashakhanloo F, Halperin HR, Calkins H, Berger RD, Nazarian S, Trayanova NA | Heart rhythm | 27108938 | Heart Rhythm | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27108938 |
| Optogenetic defibrillation terminates ventricular arrhythmia in mouse hearts and human simulations. | Bruegmann T, Boyle PM, Vogt CC, Karathanos TV, Arevalo HJ, Fleischmann BK, Trayanova NA, Sasse P | The Journal of clinical investigation | 27617859 | J Clin Invest | 2016 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/27617859 |
| Light-based Approaches to Cardiac Arrhythmia Research: From Basic Science to Translational Applications. | Karathanos TV, Boyle PM, Trayanova NA | Clinical Medicine Insights. Cardiology | 27840581 | Clin Med Insights Cardiol | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27840581 |
| Plakophilin-2 is required for transcription of genes that control calcium cycling and cardiac rhythm. | Cerrone M, Montnach J, Lin X, Zhao YT, Zhang M, Agullo-Pascual E, Leo-Macias A, Alvarado FJ, Dolgalev I, Karathanos TV, Malkani K, Van Opbergen CJM, van Bavel JJA, Yang HQ, Vasquez C, Tester D, Fowler S, Liang F, Rothenberg E, Heguy A, Morley GE, Coetzee WA, Trayanova NA, Ackerman MJ, van Veen TAB, Valdivia HH, Delmar M | Nature communications | 28740174 | Nat Commun | 2017 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/28740174 |
| β-adrenergic stimulation augments transmural dispersion of repolarization via modulation of delayed rectifier currents I(Ks) and I(Kr) in the human ventricle. | Kang C, Badiceanu A, Brennan JA, Gloschat C, Qiao Y, Trayanova NA, Efimov IR | Scientific reports | 29162896 | Sci Rep | 2017 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/29162896 |
| Towards personalized computational modelling of the fibrotic substrate for atrial arrhythmia. | Boyle PM, Zahid S, Trayanova NA | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 28011841 | Europace | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28011841 |
| Association of regional myocardial conduction velocity with the distribution of hypoattenuation on contrast-enhanced perfusion computed tomography in patients with postinfarct ventricular tachycardia. | Ustunkaya T, Desjardins B, Liu B, Zahid S, Park J, Saju N, Trayanova N, Zimmerman SL, Marchlinski FE, Nazarian S | Heart rhythm | 30935494 | Heart Rhythm | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30935494 |
| Computational Identification of Ventricular Arrhythmia Risk in Pediatric Myocarditis. | Cartoski MJ, Nikolov PP, Prakosa A, Boyle PM, Spevak PJ, Trayanova NA | Pediatric cardiology | 30840104 | Pediatr Cardiol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30840104 |
| Accurate Conduction Velocity Maps and Their Association With Scar Distribution on Magnetic Resonance Imaging in Patients With Postinfarction Ventricular Tachycardias. | Aronis KN, Ali RL, Prakosa A, Ashikaga H, Berger RD, Hakim JB, Liang J, Tandri H, Teng F, Chrispin J, Trayanova NA | Circulation. Arrhythmia and electrophysiology | 32191131 | Circ Arrhythm Electrophysiol | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32191131 |
| Rate-dependent force, intracellular calcium, and action potential voltage alternans are modulated by sarcomere length and heart failure induced-remodeling of thin filament regulation in human heart failure: A myocyte modeling study. | Zile MA, Trayanova NA | Progress in biophysics and molecular biology | 26724571 | Prog Biophys Mol Biol | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26724571 |
| Intermittent drivers anchoring to structural heterogeneities as a major pathophysiological mechanism of human persistent atrial fibrillation. | Haissaguerre M, Shah AJ, Cochet H, Hocini M, Dubois R, Efimov I, Vigmond E, Bernus O, Trayanova N | The Journal of physiology | 26890861 | J Physiol | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/26890861 |
| Myocardial Infarct Segmentation From Magnetic Resonance Images for Personalized Modeling of Cardiac Electrophysiology. | Ukwatta E, Arevalo H, Li K, Yuan J, Qiu W, Malamas P, Wu KC, Trayanova NA, Vadakkumpadan F | IEEE transactions on medical imaging | 26731693 | IEEE Trans Med Imaging | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26731693 |
| Cardiac Optogenetics: 2018. | Boyle PM, Karathanos TV, Trayanova NA | JACC. Clinical electrophysiology | 29749932 | JACC Clin Electrophysiol | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29749932 |
| Computational models in cardiology. | Niederer SA, Lumens J, Trayanova NA | Nature reviews. Cardiology | 30361497 | Nat Rev Cardiol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30361497 |
| Optimizing cardiac resynchronization therapy to minimize ATP consumption heterogeneity throughout the left ventricle: a simulation analysis using a canine heart failure model. | Hu Y, Gurev V, Constantino J, Trayanova N | Heart rhythm | 24657430 | Heart Rhythm | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24657430 |
| "Beauty is a light in the heart": the transformative potential of optogenetics for clinical applications in cardiovascular medicine. | Boyle PM, Karathanos TV, Trayanova NA | Trends in cardiovascular medicine | 25453984 | Trends Cardiovasc Med | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25453984 |
| Myocardial infarct segmentation and reconstruction from 2D late-gadolinium enhanced magnetic resonance images. | Ukwatta E, Yuan J, Qiu W, Wu KC, Trayanova N, Vadakkumpadan F | Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention | 25485423 | Med Image Comput Comput Assist Interv | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25485423 |
| Disrupted calcium release as a mechanism for atrial alternans associated with human atrial fibrillation. | Chang KC, Bayer JD, Trayanova NA | PLoS computational biology | 25501557 | PLoS Comput Biol | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25501557 |
| Coordination of heart and lung co-development by a multipotent cardiopulmonary progenitor. | Peng T, Tian Y, Boogerd CJ, Lu MM, Kadzik RS, Stewart KM, Evans SM, Morrisey EE | Nature | 23873040 | Nature | 2013 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/23873040 |
| Tbx18 Regulates the Differentiation of Periductal Smooth Muscle Stroma and the Maintenance of Epithelial Integrity in the Prostate. | Bolt CC, Negi S, Guimarães-Camboa N, Zhang H, Troy JM, Lu X, Kispert A, Evans SM, Stubbs L | PloS one | 27120339 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27120339 |
| Origins of cardiac fibroblasts. | Moore-Morris T, Cattaneo P, Puceat M, Evans SM | Journal of molecular and cellular cardiology | 26748307 | J Mol Cell Cardiol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26748307 |
| Transcription factor ISL1 is essential for pacemaker development and function. | Liang X, Zhang Q, Cattaneo P, Zhuang S, Gong X, Spann NJ, Jiang C, Cao X, Zhao X, Zhang X, Bu L, Wang G, Chen HS, Zhuang T, Yan J, Geng P, Luo L, Banerjee I, Chen Y, Glass CK, Zambon AC, Chen J, Sun Y, Evans SM | The Journal of clinical investigation | 26193633 | J Clin Invest | 2015 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/26193633 |
| Early postmyocardial infarction survival in Murphy Roths Large mice is mediated by attenuated apoptosis and inflammation but depends on genetic background. | Hunt DL, Campbell PH, Zambon AC, Vranizan K, Evans SM, Kuo HC, Yamaguchi KD, Omens JH, McCulloch AD | Experimental physiology | 21967898 | Exp Physiol | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21967898 |
| Human pre-valvular endocardial cells derived from pluripotent stem cells recapitulate cardiac pathophysiological valvulogenesis. | Neri T, Hiriart E, van Vliet PP, Faure E, Norris RA, Farhat B, Jagla B, Lefrancois J, Sugi Y, Moore-Morris T, Zaffran S, Faustino RS, Zambon AC, Desvignes JP, Salgado D, Levine RA, de la Pompa JL, Terzic A, Evans SM, Markwald R, Pucéat M | Nature communications | 31028265 | Nat Commun | 2019 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/31028265 |
| Thymosin beta 4 is dispensable for murine cardiac development and function. | Banerjee I, Zhang J, Moore-Morris T, Lange S, Shen T, Dalton ND, Gu Y, Peterson KL, Evans SM, Chen J | Circulation research | 22158707 | Circ Res | 2012 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/22158707 |
| Sorting out where fibroblasts come from. | Moore-Morris T, Tallquist MD, Evans SM | Circulation research | 25214570 | Circ Res | 2014 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/25214570 |
| Avian intervertebral disc arises from rostral sclerotome and lacks a nucleus pulposus: implications for evolution of the vertebrate disc. | Bruggeman BJ, Maier JA, Mohiuddin YS, Powers R, Lo Y, Guimarães-Camboa N, Evans SM, Harfe BD | Developmental dynamics : an official publication of the American Association of Anatomists | 22354863 | Dev Dyn | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22354863 |
| Chronic centrosome amplification without tumorigenesis. | Vitre B, Holland AJ, Kulukian A, Shoshani O, Hirai M, Wang Y, Maldonado M, Cho T, Boubaker J, Swing DA, Tessarollo L, Evans SM, Fuchs E, Cleveland DW | Proceedings of the National Academy of Sciences of the United States of America | 26578792 | Proc Natl Acad Sci U S A | 2015 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/26578792 |
| Resident fibroblast lineages mediate pressure overload-induced cardiac fibrosis. | Moore-Morris T, Guimarães-Camboa N, Banerjee I, Zambon AC, Kisseleva T, Velayoudon A, Stallcup WB, Gu Y, Dalton ND, Cedenilla M, Gomez-Amaro R, Zhou B, Brenner DA, Peterson KL, Chen J, Evans SM | The Journal of clinical investigation | 24937432 | J Clin Invest | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24937432 |
| Probing chromatin landscape reveals roles of endocardial TBX20 in septation. | Boogerd CJ, Aneas I, Sakabe N, Dirschinger RJ, Cheng QJ, Zhou B, Chen J, Nobrega MA, Evans SM | The Journal of clinical investigation | 27348591 | J Clin Invest | 2016 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/27348591 |
| Mapping the dynamic expression of Wnt11 and the lineage contribution of Wnt11-expressing cells during early mouse development. | Sinha T, Lin L, Li D, Davis J, Evans S, Wynshaw-Boris A, Wang J | Developmental biology | 25448697 | Dev Biol | 2015 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/25448697 |
| Single-molecule states link transcription factor binding to gene expression. | Doughty BR, Hinks MM, Schaepe JM, Marinov GK, Thurm AR, Rios-Martinez C, Parks BE, Tan Y, Marklund E, Dubocanin D, Bintu L, Greenleaf WJ | Nature | 39567683 | Nature | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39567683 |
| Three-dimensional genome landscape of primary human cancers. | Yost KE, Zhao Y, Hung KL, Zhu K, Xu D, Corces MR, Shams S, Louie BH, Sarmashghi S, Sundaram L, Luebeck J, Clarke S, Doane AS, Granja JM, Choudhry H, Imieliński M, Cherniack AD, Khurana E, Bafna V, Felau I, Zenklusen JC, Laird PW, Curtis C, Cancer Genome Atlas Analysis Network, Greenleaf WJ, Chang HY | Nature genetics | 40355593 | Nat Genet | 2025 May | https://www.ncbi.nlm.nih.gov/pubmed/40355593 |
| On the design of CRISPR-based single-cell molecular screens. | Hill AJ, McFaline-Figueroa JL, Starita LM, Gasperini MJ, Matreyek KA, Packer J, Jackson D, Shendure J, Trapnell C | Nature methods | 29457792 | Nat Methods | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29457792 |
| Cell-free DNA Comprises an In Vivo Nucleosome Footprint that Informs Its Tissues-Of-Origin. | Snyder MW, Kircher M, Hill AJ, Daza RM, Shendure J | Cell | 26771485 | Cell | 2016 Jan 14 | https://www.ncbi.nlm.nih.gov/pubmed/26771485 |
| Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing. | Cusanovich DA, Daza R, Adey A, Pliner HA, Christiansen L, Gunderson KL, Steemers FJ, Trapnell C, Shendure J | Science (New York, N.Y.) | 25953818 | Science | 2015 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/25953818 |
| Massively multiplex chemical transcriptomics at single-cell resolution. | Srivatsan SR, McFaline-Figueroa JL, Ramani V, Saunders L, Cao J, Packer J, Pliner HA, Jackson DL, Daza RM, Christiansen L, Zhang F, Steemers F, Shendure J, Trapnell C | Science (New York, N.Y.) | 31806696 | Science | 2020 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/31806696 |
| Predicting mRNA Abundance Directly from Genomic Sequence Using Deep Convolutional Neural Networks. | Agarwal V, Shendure J | Cell reports | 32433972 | Cell Rep | 2020 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/32433972 |
| High-throughput determination of RNA structure by proximity ligation. | Ramani V, Qiu R, Shendure J | Nature biotechnology | 26237516 | Nat Biotechnol | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26237516 |
| The single-cell transcriptional landscape of mammalian organogenesis. | Cao J, Spielmann M, Qiu X, Huang X, Ibrahim DM, Hill AJ, Zhang F, Mundlos S, Christiansen L, Steemers FJ, Trapnell C, Shendure J | Nature | 30787437 | Nature | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30787437 |
| Multiplex assessment of protein variant abundance by massively parallel sequencing. | Matreyek KA, Starita LM, Stephany JJ, Martin B, Chiasson MA, Gray VE, Kircher M, Khechaduri A, Dines JN, Hause RJ, Bhatia S, Evans WE, Relling MV, Yang W, Shendure J, Fowler DM | Nature genetics | 29785012 | Nat Genet | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29785012 |
| Variant Interpretation: Functional Assays to the Rescue. | Starita LM, Ahituv N, Dunham MJ, Kitzman JO, Roth FP, Seelig G, Shendure J, Fowler DM | American journal of human genetics | 28886340 | Am J Hum Genet | 2017 Sep 7 | https://www.ncbi.nlm.nih.gov/pubmed/28886340 |
| CRISPR/Cas9-Mediated Scanning for Regulatory Elements Required for HPRT1 Expression via Thousands of Large, Programmed Genomic Deletions. | Gasperini M, Findlay GM, McKenna A, Milbank JH, Lee C, Zhang MD, Cusanovich DA, Shendure J | American journal of human genetics | 28712454 | Am J Hum Genet | 2017 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/28712454 |
| Massively Parallel Functional Analysis of BRCA1 RING Domain Variants. | Starita LM, Young DL, Islam M, Kitzman JO, Gullingsrud J, Hause RJ, Fowler DM, Parvin JD, Shendure J, Fields S | Genetics | 25823446 | Genetics | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25823446 |
| Copy-number variation and false positive prenatal aneuploidy screening results. | Snyder MW, Simmons LE, Kitzman JO, Coe BP, Henson JM, Daza RM, Eichler EE, Shendure J, Gammill HS | The New England journal of medicine | 25830323 | N Engl J Med | 2015 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/25830323 |
| Multiplex single-cell chemical genomics reveals the kinase dependence of the response to targeted therapy. | McFaline-Figueroa JL, Srivatsan S, Hill AJ, Gasperini M, Jackson DL, Saunders L, Domcke S, Regalado SG, Lazarchuck P, Alvarez S, Monnat RJ Jr, Shendure J, Trapnell C | Cell genomics | 38278156 | Cell Genom | 2024 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/38278156 |
| Multiplex single-cell chemical genomics reveals the kinase dependence of the response to targeted therapy. | McFaline-Figueroa JL, Srivatsan S, Hill AJ, Gasperini M, Jackson DL, Saunders L, Domcke S, Regalado SG, Lazarchuck P, Alvarez S, Monnat RJ Jr, Shendure J, Trapnell C | bioRxiv : the preprint server for biology | 37398090 | bioRxiv | 2023 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/37398090 |
| Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data. | Pliner HA, Packer JS, McFaline-Figueroa JL, Cusanovich DA, Daza RM, Aghamirzaie D, Srivatsan S, Qiu X, Jackson D, Minkina A, Adey AC, Steemers FJ, Shendure J, Trapnell C | Molecular cell | 30078726 | Mol Cell | 2018 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/30078726 |
| Concurrent genome and epigenome editing by CRISPR-mediated sequence replacement. | Alexander J, Findlay GM, Kircher M, Shendure J | BMC biology | 31739790 | BMC Biol | 2019 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/31739790 |
| Genomic Medicine-Progress, Pitfalls, and Promise. | Shendure J, Findlay GM, Snyder MW | Cell | 30901547 | Cell | 2019 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/30901547 |
| A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens. | Gasperini M, Hill AJ, McFaline-Figueroa JL, Martin B, Kim S, Zhang MD, Jackson D, Leith A, Schreiber J, Noble WS, Trapnell C, Ahituv N, Shendure J | Cell | 30612741 | Cell | 2019 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/30612741 |
| A Multiplex Homology-Directed DNA Repair Assay Reveals the Impact of More Than 1,000 BRCA1 Missense Substitution Variants on Protein Function. | Starita LM, Islam MM, Banerjee T, Adamovich AI, Gullingsrud J, Fields S, Shendure J, Parvin JD | American journal of human genetics | 30219179 | Am J Hum Genet | 2018 Oct 4 | https://www.ncbi.nlm.nih.gov/pubmed/30219179 |
| Supervised classification enables rapid annotation of cell atlases. | Pliner HA, Shendure J, Trapnell C | Nature methods | 31501545 | Nat Methods | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31501545 |
| A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens. | Gasperini M, Hill AJ, McFaline-Figueroa JL, Martin B, Kim S, Zhang MD, Jackson D, Leith A, Schreiber J, Noble WS, Trapnell C, Ahituv N, Shendure J | Cell | 30849375 | Cell | 2019 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/30849375 |
| Massively parallel single-amino-acid mutagenesis. | Kitzman JO, Starita LM, Lo RS, Fields S, Shendure J | Nature methods | 25559584 | Nat Methods | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25559584 |
| Multimodal single-cell analysis reveals distinct radioresistant stem-like and progenitor cell populations in murine glioma. | Alexander J, LaPlant QC, Pattwell SS, Szulzewsky F, Cimino PJ, Caruso FP, Pugliese P, Chen Z, Chardon F, Hill AJ, Spurrell C, Ahrendsen D, Pietras A, Starita LM, Hambardzumyan D, Iavarone A, Shendure J, Holland EC | Glia | 32621641 | Glia | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/32621641 |
| High-Throughput Single-Cell Sequencing with Linear Amplification. | Yin Y, Jiang Y, Lam KG, Berletch JB, Disteche CM, Noble WS, Steemers FJ, Camerini-Otero RD, Adey AC, Shendure J | Molecular cell | 31495564 | Mol Cell | 2019 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/31495564 |
| FlashFry: a fast and flexible tool for large-scale CRISPR target design. | McKenna A, Shendure J | BMC biology | 29976198 | BMC Biol | 2018 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/29976198 |
| Quantitative Missense Variant Effect Prediction Using Large-Scale Mutagenesis Data. | Gray VE, Hause RJ, Luebeck J, Shendure J, Fowler DM | Cell systems | 29226803 | Cell Syst | 2018 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/29226803 |
| Sci-Hi-C: A single-cell Hi-C method for mapping 3D genome organization in large number of single cells. | Ramani V, Deng X, Qiu R, Lee C, Disteche CM, Noble WS, Shendure J, Duan Z | Methods (San Diego, Calif.) | 31536770 | Methods | 2020 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/31536770 |
| Accurate classification of BRCA1 variants with saturation genome editing. | Findlay GM, Daza RM, Martin B, Zhang MD, Leith AP, Gasperini M, Janizek JD, Huang X, Starita LM, Shendure J | Nature | 30209399 | Nature | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30209399 |
| The power of multiplexed functional analysis of genetic variants. | Gasperini M, Starita L, Shendure J | Nature protocols | 27583640 | Nat Protoc | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27583640 |
| Mapping 3D genome architecture through in situ DNase Hi-C. | Ramani V, Cusanovich DA, Hause RJ, Ma W, Qiu R, Deng X, Blau CA, Disteche CM, Noble WS, Shendure J, Duan Z | Nature protocols | 27685100 | Nat Protoc | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27685100 |
| High Sensitivity Profiling of Chromatin Structure by MNase-SSP. | Ramani V, Qiu R, Shendure J | Cell reports | 30811994 | Cell Rep | 2019 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/30811994 |
| The landscape of alternative polyadenylation in single cells of the developing mouse embryo. | Agarwal V, Lopez-Darwin S, Kelley DR, Shendure J | Nature communications | 34429411 | Nat Commun | 2021 Aug 24 | https://www.ncbi.nlm.nih.gov/pubmed/34429411 |
| Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain. | Raj B, Wagner DE, McKenna A, Pandey S, Klein AM, Shendure J, Gagnon JA, Schier AF | Nature biotechnology | 29608178 | Nat Biotechnol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29608178 |
| Saturation editing of genomic regions by multiplex homology-directed repair. | Findlay GM, Boyle EA, Hause RJ, Klein JC, Shendure J | Nature | 25141179 | Nature | 2014 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/25141179 |
| Whole-organism lineage tracing by combinatorial and cumulative genome editing. | McKenna A, Findlay GM, Gagnon JA, Horwitz MS, Schier AF, Shendure J | Science (New York, N.Y.) | 27229144 | Science | 2016 Jul 29 | https://www.ncbi.nlm.nih.gov/pubmed/27229144 |
| The cis-regulatory dynamics of embryonic development at single-cell resolution. | Cusanovich DA, Reddington JP, Garfield DA, Daza RM, Aghamirzaie D, Marco-Ferreres R, Pliner HA, Christiansen L, Qiu X, Steemers FJ, Trapnell C, Shendure J, Furlong EEM | Nature | 29539636 | Nature | 2018 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/29539636 |
| Massively multiplex single-cell Hi-C. | Ramani V, Deng X, Qiu R, Gunderson KL, Steemers FJ, Disteche CM, Noble WS, Duan Z, Shendure J | Nature methods | 28135255 | Nat Methods | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28135255 |
| Joint profiling of chromatin accessibility and gene expression in thousands of single cells. | Cao J, Cusanovich DA, Ramani V, Aghamirzaie D, Pliner HA, Hill AJ, Daza RM, McFaline-Figueroa JL, Packer JS, Christiansen L, Steemers FJ, Adey AC, Trapnell C, Shendure J | Science (New York, N.Y.) | 30166440 | Science | 2018 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/30166440 |
| A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility. | Cusanovich DA, Hill AJ, Aghamirzaie D, Daza RM, Pliner HA, Berletch JB, Filippova GN, Huang X, Christiansen L, DeWitt WS, Lee C, Regalado SG, Read DF, Steemers FJ, Disteche CM, Trapnell C, Shendure J | Cell | 30078704 | Cell | 2018 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/30078704 |
| Comprehensive single-cell transcriptional profiling of a multicellular organism. | Cao J, Packer JS, Ramani V, Cusanovich DA, Huynh C, Daza R, Qiu X, Lee C, Furlan SN, Steemers FJ, Adey A, Waterston RH, Trapnell C, Shendure J | Science (New York, N.Y.) | 28818938 | Science | 2017 Aug 18 | https://www.ncbi.nlm.nih.gov/pubmed/28818938 |
| Sci-fate characterizes the dynamics of gene expression in single cells. | Cao J, Zhou W, Steemers F, Trapnell C, Shendure J | Nature biotechnology | 32284584 | Nat Biotechnol | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32284584 |
| A general framework for estimating the relative pathogenicity of human genetic variants. | Kircher M, Witten DM, Jain P, O'Roak BJ, Cooper GM, Shendure J | Nature genetics | 24487276 | Nat Genet | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24487276 |
| Spatial patterning of energy metabolism during tissue morphogenesis. | Lemma B, Nelson CM | Current opinion in cell biology | 37696131 | Curr Opin Cell Biol | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37696131 |
| pYtags enable spatiotemporal measurements of receptor tyrosine kinase signaling in living cells. | Farahani PE, Yang X, Mesev EV, Fomby KA, Brumbaugh-Reed EH, Bashor CJ, Nelson CM, Toettcher JE | eLife | 37212240 | Elife | 2023 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/37212240 |
| Analysis of Cre lines for targeting embryonic airway smooth muscle. | Goodwin K, Nelson CM | Developmental biology | 36706974 | Dev Biol | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/36706974 |
| Plasticity in airway smooth muscle differentiation during mouse lung development. | Goodwin K, Lemma B, Zhang P, Boukind A, Nelson CM | Developmental cell | 36868232 | Dev Cell | 2023 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/36868232 |
| Mesenchymal Vangl1 and Vangl2 facilitate airway elongation and widening independently of the planar cell polarity complex. | Paramore SV, Goodwin K, Fowler EW, Devenport D, Nelson CM | Development (Cambridge, England) | 39225402 | Development | 2024 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/39225402 |
| Vangl-dependent mesenchymal thinning shapes the distal lung during murine sacculation. | Paramore SV, Trenado-Yuste C, Sharan R, Nelson CM, Devenport D | Developmental cell | 38569553 | Dev Cell | 2024 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/38569553 |
| Mesenchymal Vangl facilitates airway elongation and widening independently of the planar cell polarity complex. | Paramore SV, Goodwin K, Devenport D, Nelson CM | bioRxiv : the preprint server for biology | 37461477 | bioRxiv | 2023 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/37461477 |
| Biophysics of morphogenesis in the vertebrate lung. | Banavar SP, Fowler EW, Nelson CM | Current topics in developmental biology | 38937031 | Curr Top Dev Biol | 2024 | https://www.ncbi.nlm.nih.gov/pubmed/38937031 |
| Self-Organization of Mouse Stem Cells into an Extended Potential Blastoid. | Sozen B, Cox AL, De Jonghe J, Bao M, Hollfelder F, Glover DM, Zernicka-Goetz M | Developmental cell | 31846649 | Dev Cell | 2019 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/31846649 |
| Embryo model completes gastrulation to neurulation and organogenesis. | Amadei G, Handford CE, Qiu C, De Jonghe J, Greenfeld H, Tran M, Martin BK, Chen DY, Aguilera-Castrejon A, Hanna JH, Elowitz MB, Hollfelder F, Shendure J, Glover DM, Zernicka-Goetz M | Nature | 36007540 | Nature | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36007540 |
| Self-organization of stem cells into embryos: A window on early mammalian development. | Shahbazi MN, Siggia ED, Zernicka-Goetz M | Science (New York, N.Y.) | 31171690 | Science | 2019 Jun 7 | https://www.ncbi.nlm.nih.gov/pubmed/31171690 |
| Assembly of complete mouse embryo models from embryonic and induced stem cell types in vitro. | Lau KYC, Amadei G, Zernicka-Goetz M | Nature protocols | 37821625 | Nat Protoc | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37821625 |
| spinDrop: a droplet microfluidic platform to maximise single-cell sequencing information content. | De Jonghe J, Kaminski TS, Morse DB, Tabaka M, Ellermann AL, Kohler TN, Amadei G, Handford CE, Findlay GM, Zernicka-Goetz M, Teichmann SA, Hollfelder F | Nature communications | 37553326 | Nat Commun | 2023 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/37553326 |
| Stem-cell-based human and mouse embryo models. | Bao M, Cornwall-Scoones J, Zernicka-Goetz M | Current opinion in genetics & development | 35988317 | Curr Opin Genet Dev | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/35988317 |
| The dynamics of morphogenesis in stem cell-based embryology: Novel insights for symmetry breaking. | Sozen B, Cornwall-Scoones J, Zernicka-Goetz M | Developmental biology | 33333067 | Dev Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33333067 |
| Modeling human embryo development with embryonic and extra-embryonic stem cells. | Weatherbee BAT, Cui T, Zernicka-Goetz M | Developmental biology | 33333069 | Dev Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33333069 |
| Integrin β1 coordinates survival and morphogenesis of the embryonic lineage upon implantation and pluripotency transition. | Molè MA, Weberling A, Fässler R, Campbell A, Fishel S, Zernicka-Goetz M | Cell reports | 33691117 | Cell Rep | 2021 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/33691117 |
| Inducible Stem-Cell-Derived Embryos Capture Mouse Morphogenetic Events In Vitro. | Amadei G, Lau KYC, De Jonghe J, Gantner CW, Sozen B, Chan C, Zhu M, Kyprianou C, Hollfelder F, Zernicka-Goetz M | Developmental cell | 33378662 | Dev Cell | 2021 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/33378662 |
| AI-based approach to dissect the variability of mouse stem cell-derived embryo models. | Caldarelli P, Deininger L, Zhao S, Panda P, Yang C, Mikut R, Zernicka-Goetz M | Nature communications | 39971935 | Nat Commun | 2025 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/39971935 |
| Basement membrane remodelling regulates mouse embryogenesis. | Kyprianou C, Christodoulou N, Hamilton RS, Nahaboo W, Boomgaard DS, Amadei G, Migeotte I, Zernicka-Goetz M | Nature | 32523119 | Nature | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32523119 |
| Topical section: embryonic models (2023) for Current Opinion in Genetics & Development. | Handford CE, Junyent S, Jorgensen V, Zernicka-Goetz M | Current opinion in genetics & development | 38052116 | Curr Opin Genet Dev | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38052116 |
| Embryo size regulates the timing and mechanism of pluripotent tissue morphogenesis. | Orietti LC, Rosa VS, Antonica F, Kyprianou C, Mansfield W, Marques-Souza H, Shahbazi MN, Zernicka-Goetz M | Stem cell reports | 33035465 | Stem Cell Reports | 2021 May 11 | https://www.ncbi.nlm.nih.gov/pubmed/33035465 |
| An in vitro stem cell model of human epiblast and yolk sac interaction. | Mackinlay KM, Weatherbee BA, Souza Rosa V, Handford CE, Hudson G, Coorens T, Pereira LV, Behjati S, Vallier L, Shahbazi MN, Zernicka-Goetz M | eLife | 34403333 | Elife | 2021 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/34403333 |
| BMP signalling is required for extra-embryonic ectoderm development during pre-to-post-implantation transition of the mouse embryo. | Sozen B, Demir N, Zernicka-Goetz M | Developmental biology | 33217407 | Dev Biol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33217407 |
| Stem cell-derived synthetic embryos self-assemble by exploiting cadherin codes and cortical tension. | Bao M, Cornwall-Scoones J, Sanchez-Vasquez E, Cox AL, Chen DY, De Jonghe J, Shadkhoo S, Hollfelder F, Thomson M, Glover DM, Zernicka-Goetz M | Nature cell biology | 36100738 | Nat Cell Biol | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36100738 |
| Progress and challenges in stem cell biology. | Apostolou E, Blau H, Chien K, Lancaster MA, Tata PR, Trompouki E, Watt FM, Zeng YA, Zernicka-Goetz M | Nature cell biology | 36788378 | Nat Cell Biol | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36788378 |
| Mouse embryo model derived exclusively from embryonic stem cells undergoes neurulation and heart development. | Lau KYC, Rubinstein H, Gantner CW, Hadas R, Amadei G, Stelzer Y, Zernicka-Goetz M | Cell stem cell | 36084657 | Cell Stem Cell | 2022 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/36084657 |
| Unifying synthetic embryology. | Cornwall-Scoones J, Zernicka-Goetz M | Developmental biology | 33753081 | Dev Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33753081 |
| Principles of Self-Organization of the Mammalian Embryo. | Zhu M, Zernicka-Goetz M | Cell | 33306953 | Cell | 2020 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/33306953 |
| Trophectoderm mechanics direct epiblast shape upon embryo implantation. | Weberling A, Zernicka-Goetz M | Cell reports | 33472064 | Cell Rep | 2021 Jan 19 | https://www.ncbi.nlm.nih.gov/pubmed/33472064 |
| Temporal BMP4 effects on mouse embryonic and extraembryonic development. | Hadas R, Rubinstein H, Mittnenzweig M, Mayshar Y, Ben-Yair R, Cheng S, Aguilera-Castrejon A, Reines N, Orenbuch AH, Lifshitz A, Chen DY, Elowitz MB, Zernicka-Goetz M, Hanna JH, Tanay A, Stelzer Y | Nature | 39294373 | Nature | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39294373 |
| Comprehensive Identification and Spatial Mapping of Habenular Neuronal Types Using Single-Cell RNA-Seq. | Pandey S, Shekhar K, Regev A, Schier AF | Current biology : CB | 29576475 | Curr Biol | 2018 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/29576475 |
| Emergence of Neuronal Diversity during Vertebrate Brain Development. | Raj B, Farrell JA, Liu J, El Kholtei J, Carte AN, Navajas Acedo J, Du LY, McKenna A, Relić Đ, Leslie JM, Schier AF | Neuron | 33068532 | Neuron | 2020 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/33068532 |
| Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR-Cas9 barcodes by scGESTALT. | Raj B, Gagnon JA, Schier AF | Nature protocols | 30353175 | Nat Protoc | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30353175 |
| Zebrafish oxytocin neurons drive nocifensive behavior via brainstem premotor targets. | Wee CL, Nikitchenko M, Wang WC, Luks-Morgan SJ, Song E, Gagnon JA, Randlett O, Bianco IH, Lacoste AMB, Glushenkova E, Barrios JP, Schier AF, Kunes S, Engert F, Douglass AD | Nature neuroscience | 31358991 | Nat Neurosci | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31358991 |
| Cerebellar Neurodynamics Predict Decision Timing and Outcome on the Single-Trial Level. | Lin Q, Manley J, Helmreich M, Schlumm F, Li JM, Robson DN, Engert F, Schier A, Nöbauer T, Vaziri A | Cell | 31955849 | Cell | 2020 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/31955849 |
| Convergent Temperature Representations in Artificial and Biological Neural Networks. | Haesemeyer M, Schier AF, Engert F | Neuron | 31376984 | Neuron | 2019 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/31376984 |
| Single-cell analysis of shared signatures and transcriptional diversity during zebrafish development. | Sur A, Wang Y, Capar P, Margolin G, Prochaska MK, Farrell JA | Developmental cell | 37995681 | Dev Cell | 2023 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/37995681 |
| Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis. | Farrell JA, Wang Y, Riesenfeld SJ, Shekhar K, Regev A, Schier AF | Science (New York, N.Y.) | 29700225 | Science | 2018 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/29700225 |
| Gene family evolution underlies cell-type diversification in the hypothalamus of teleosts. | Shafer MER, Sawh AN, Schier AF | Nature ecology & evolution | 34824389 | Nat Ecol Evol | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34824389 |
| Molecular mechanisms controlling the biogenesis of the TGF-β signal Vg1. | Dingal PCDP, Carte AN, Montague TG, Lim Suan MB Jr, Schier AF | Proceedings of the National Academy of Sciences of the United States of America | 37844219 | Proc Natl Acad Sci U S A | 2023 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/37844219 |
| Single-cell analysis of shared signatures and transcriptional diversity during zebrafish development. | Sur A, Wang Y, Capar P, Margolin G, Farrell JA | bioRxiv : the preprint server for biology | 36993555 | bioRxiv | 2023 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/36993555 |
| Phenotypic Landscape of Schizophrenia-Associated Genes Defines Candidates and Their Shared Functions. | Thyme SB, Pieper LM, Li EH, Pandey S, Wang Y, Morris NS, Sha C, Choi JW, Herrera KJ, Soucy ER, Zimmerman S, Randlett O, Greenwood J, McCarroll SA, Schier AF | Cell | 30929901 | Cell | 2019 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/30929901 |
| A single-cell transcriptome atlas of the maturing zebrafish telencephalon. | Pandey S, Moyer AJ, Thyme SB | Genome research | 37072188 | Genome Res | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/37072188 |
| Propagation of Information Along the Cortical Hierarchy as a Function of Attention While Reading and Listening to Stories. | Regev M, Simony E, Lee K, Tan KM, Chen J, Hasson U | Cerebral cortex (New York, N.Y. : 1991) | 30395174 | Cereb Cortex | 2019 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/30395174 |
| Alignment of brain embeddings and artificial contextual embeddings in natural language points to common geometric patterns. | Goldstein A, Grinstein-Dabush A, Schain M, Wang H, Hong Z, Aubrey B, Nastase SA, Zada Z, Ham E, Feder A, Gazula H, Buchnik E, Doyle W, Devore S, Dugan P, Reichart R, Friedman D, Brenner M, Hassidim A, Devinsky O, Flinker A, Hasson U | Nature communications | 38553456 | Nat Commun | 2024 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/38553456 |
| Information flow across the cortical timescale hierarchy during narrative construction. | Chang CHC, Nastase SA, Hasson U | Proceedings of the National Academy of Sciences of the United States of America | 36508677 | Proc Natl Acad Sci U S A | 2022 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/36508677 |
| A shared model-based linguistic space for transmitting our thoughts from brain to brain in natural conversations. | Zada Z, Goldstein A, Michelmann S, Simony E, Price A, Hasenfratz L, Barham E, Zadbood A, Doyle W, Friedman D, Dugan P, Melloni L, Devore S, Flinker A, Devinsky O, Nastase SA, Hasson U | Neuron | 39096896 | Neuron | 2024 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/39096896 |
| Linguistic coupling between neural systems for speech production and comprehension during real-time dyadic conversations. | Zada Z, Nastase SA, Speer S, Mwilambwe-Tshilobo L, Tsoi L, Burns S, Falk E, Hasson U, Tamir D | bioRxiv : the preprint server for biology | 39990465 | bioRxiv | 2025 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/39990465 |
| Bayesian Surprise Predicts Human Event Segmentation in Story Listening. | Kumar M, Goldstein A, Michelmann S, Zacks JM, Hasson U, Norman KA | Cognitive science | 37867379 | Cogn Sci | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37867379 |
| A shared linguistic space for transmitting our thoughts from brain to brain in natural conversations. | Zada Z, Goldstein A, Michelmann S, Simony E, Price A, Hasenfratz L, Barham E, Zadbood A, Doyle W, Friedman D, Dugan P, Melloni L, Devore S, Flinker A, Devinsky O, Nastase SA, Hasson U | bioRxiv : the preprint server for biology | 37425747 | bioRxiv | 2023 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/37425747 |
| The "Narratives" fMRI dataset for evaluating models of naturalistic language comprehension. | Nastase SA, Liu YF, Hillman H, Zadbood A, Hasenfratz L, Keshavarzian N, Chen J, Honey CJ, Yeshurun Y, Regev M, Nguyen M, Chang CHC, Baldassano C, Lositsky O, Simony E, Chow MA, Leong YC, Brooks PP, Micciche E, Choe G, Goldstein A, Vanderwal T, Halchenko YO, Norman KA, Hasson U | Scientific data | 34584100 | Sci Data | 2021 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/34584100 |
| Neural alignment predicts learning outcomes in students taking an introduction to computer science course. | Meshulam M, Hasenfratz L, Hillman H, Liu YF, Nguyen M, Norman KA, Hasson U | Nature communications | 33771999 | Nat Commun | 2021 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/33771999 |
| Infant and Adult Brains Are Coupled to the Dynamics of Natural Communication. | Piazza EA, Hasenfratz L, Hasson U, Lew-Williams C | Psychological science | 31845827 | Psychol Sci | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31845827 |
| Neural representations of naturalistic events are updated as our understanding of the past changes. | Zadbood A, Nastase S, Chen J, Norman KA, Hasson U | eLife | 36519530 | Elife | 2022 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/36519530 |
| A unified acoustic-to-speech-to-language embedding space captures the neural basis of natural language processing in everyday conversations. | Goldstein A, Wang H, Niekerken L, Schain M, Zada Z, Aubrey B, Sheffer T, Nastase SA, Gazula H, Singh A, Rao A, Choe G, Kim C, Doyle W, Friedman D, Devore S, Dugan P, Hassidim A, Brenner M, Matias Y, Devinsky O, Flinker A, Hasson U | Nature human behaviour | 40055549 | Nat Hum Behav | 2025 May | https://www.ncbi.nlm.nih.gov/pubmed/40055549 |
| The "Podcast" ECoG dataset for modeling neural activity during natural language comprehension. | Zada Z, Nastase SA, Aubrey B, Jalon I, Michelmann S, Wang H, Hasenfratz L, Doyle W, Friedman D, Dugan P, Melloni L, Devore S, Flinker A, Devinsky O, Goldstein A, Hasson U | bioRxiv : the preprint server for biology | 39990398 | bioRxiv | 2025 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/39990398 |
| Scale matters: Large language models with billions (rather than millions) of parameters better match neural representations of natural language. | Hong Z, Wang H, Zada Z, Gazula H, Turner D, Aubrey B, Niekerken L, Doyle W, Devore S, Dugan P, Friedman D, Devinsky O, Flinker A, Hasson U, Nastase SA, Goldstein A | bioRxiv : the preprint server for biology | 39005394 | bioRxiv | 2024 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/39005394 |
| How a speaker herds the audience: multibrain neural convergence over time during naturalistic storytelling. | Chang CHC, Nastase SA, Zadbood A, Hasson U | Social cognitive and affective neuroscience | 39223692 | Soc Cogn Affect Neurosci | 2024 Sep 24 | https://www.ncbi.nlm.nih.gov/pubmed/39223692 |
| Measuring speaker-listener neural coupling with functional near infrared spectroscopy. | Liu Y, Piazza EA, Simony E, Shewokis PA, Onaral B, Hasson U, Ayaz H | Scientific reports | 28240295 | Sci Rep | 2017 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/28240295 |
| Shared understanding of narratives is correlated with shared neural responses. | Nguyen M, Vanderwal T, Hasson U | NeuroImage | 30217543 | Neuroimage | 2019 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/30217543 |
| Measuring shared responses across subjects using intersubject correlation. | Nastase SA, Gazzola V, Hasson U, Keysers C | Social cognitive and affective neuroscience | 31099394 | Soc Cogn Affect Neurosci | 2019 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/31099394 |
| In Search of a Neural Mechanism for Domain-General Value Comparison in Decision Making. | Samara A, Zada Z | The Journal of neuroscience : the official journal of the Society for Neuroscience | 39939165 | J Neurosci | 2025 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/39939165 |
| Shared computational principles for language processing in humans and deep language models. | Goldstein A, Zada Z, Buchnik E, Schain M, Price A, Aubrey B, Nastase SA, Feder A, Emanuel D, Cohen A, Jansen A, Gazula H, Choe G, Rao A, Kim C, Casto C, Fanda L, Doyle W, Friedman D, Dugan P, Melloni L, Reichart R, Devore S, Flinker A, Hasenfratz L, Levy O, Hassidim A, Brenner M, Matias Y, Norman KA, Devinsky O, Hasson U | Nature neuroscience | 35260860 | Nat Neurosci | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35260860 |
| How a speaker herds the audience: Multi-brain neural convergence over time during naturalistic storytelling. | Chang CHC, Nastase SA, Hasson U | bioRxiv : the preprint server for biology | 37873125 | bioRxiv | 2024 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/37873125 |
| A functional neuroimaging dataset acquired during naturalistic movie watching and narrated recall of a series of short cinematic films. | Lee H, Chen J, Hasson U | Data in brief | 36506797 | Data Brief | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36506797 |
| Direct Fit to Nature: An Evolutionary Perspective on Biological and Artificial Neural Networks. | Hasson U, Nastase SA, Goldstein A | Neuron | 32027833 | Neuron | 2020 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/32027833 |
| Teacher-student neural coupling during teaching and learning. | Nguyen M, Chang A, Micciche E, Meshulam M, Nastase SA, Hasson U | Social cognitive and affective neuroscience | 34450637 | Soc Cogn Affect Neurosci | 2022 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/34450637 |
| Neural synchrony predicts children's learning of novel words. | Piazza EA, Cohen A, Trach J, Lew-Williams C | Cognition | 33965782 | Cognition | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/33965782 |
| Elucidating relations between fMRI, ECoG, and EEG through a common natural stimulus. | Haufe S, DeGuzman P, Henin S, Arcaro M, Honey CJ, Hasson U, Parra LC | NeuroImage | 29902585 | Neuroimage | 2018 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/29902585 |
| Keep it real: rethinking the primacy of experimental control in cognitive neuroscience. | Nastase SA, Goldstein A, Hasson U | NeuroImage | 32800992 | Neuroimage | 2020 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/32800992 |
| The default mode network: where the idiosyncratic self meets the shared social world. | Yeshurun Y, Nguyen M, Hasson U | Nature reviews. Neuroscience | 33483717 | Nat Rev Neurosci | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33483717 |
| Perceiving social interactions in the posterior superior temporal sulcus. | Isik L, Koldewyn K, Beeler D, Kanwisher N | Proceedings of the National Academy of Sciences of the United States of America | 29073111 | Proc Natl Acad Sci U S A | 2017 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/29073111 |
| Exploring early human brain development with structural and physiological neuroimaging. | Vasung L, Abaci Turk E, Ferradal SL, Sutin J, Stout JN, Ahtam B, Lin PY, Grant PE | NeuroImage | 30041061 | Neuroimage | 2019 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/30041061 |
| The neural architecture of language: Integrative modeling converges on predictive processing. | Schrimpf M, Blank IA, Tuckute G, Kauf C, Hosseini EA, Kanwisher N, Tenenbaum JB, Fedorenko E | Proceedings of the National Academy of Sciences of the United States of America | 34737231 | Proc Natl Acad Sci U S A | 2021 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/34737231 |
| An integrative computational architecture for object-driven cortex. | Yildirim I, Wu J, Kanwisher N, Tenenbaum J | Current opinion in neurobiology | 30825704 | Curr Opin Neurobiol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30825704 |
| How face perception unfolds over time. | Dobs K, Isik L, Pantazis D, Kanwisher N | Nature communications | 30890707 | Nat Commun | 2019 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/30890707 |
| Brain-like functional specialization emerges spontaneously in deep neural networks. | Dobs K, Martinez J, Kell AJE, Kanwisher N | Science advances | 35294241 | Sci Adv | 2022 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/35294241 |
| Music-selective neural populations arise without musical training. | Boebinger D, Norman-Haignere SV, McDermott JH, Kanwisher N | Journal of neurophysiology | 33596723 | J Neurophysiol | 2021 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/33596723 |
| Visual experience is not necessary for the development of face-selectivity in the lateral fusiform gyrus. | Ratan Murty NA, Teng S, Beeler D, Mynick A, Oliva A, Kanwisher N | Proceedings of the National Academy of Sciences of the United States of America | 32839334 | Proc Natl Acad Sci U S A | 2020 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/32839334 |
| Organization of high-level visual cortex in human infants. | Deen B, Richardson H, Dilks DD, Takahashi A, Keil B, Wald LL, Kanwisher N, Saxe R | Nature communications | 28072399 | Nat Commun | 2017 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/28072399 |
| The Quest for the FFA and Where It Led. | Kanwisher N | The Journal of neuroscience : the official journal of the Society for Neuroscience | 28148806 | J Neurosci | 2017 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/28148806 |
| Behavioral signatures of face perception emerge in deep neural networks optimized for face recognition. | Dobs K, Yuan J, Martinez J, Kanwisher N | Proceedings of the National Academy of Sciences of the United States of America | 37523537 | Proc Natl Acad Sci U S A | 2023 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/37523537 |
| Using child-friendly movie stimuli to study the development of face, place, and object regions from age 3 to 12 years. | Kamps FS, Richardson H, Murty NAR, Kanwisher N, Saxe R | Human brain mapping | 35274789 | Hum Brain Mapp | 2022 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/35274789 |
| Computational models of category-selective brain regions enable high-throughput tests of selectivity. | Ratan Murty NA, Bashivan P, Abate A, DiCarlo JJ, Kanwisher N | Nature communications | 34545079 | Nat Commun | 2021 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/34545079 |
| A neural population selective for song in human auditory cortex. | Norman-Haignere SV, Feather J, Boebinger D, Brunner P, Ritaccio A, McDermott JH, Schalk G, Kanwisher N | Current biology : CB | 35196507 | Curr Biol | 2022 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/35196507 |
| A highly selective response to food in human visual cortex revealed by hypothesis-free voxel decomposition. | Khosla M, Ratan Murty NA, Kanwisher N | Current biology : CB | 36027910 | Curr Biol | 2022 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/36027910 |
| Selective responses to faces, scenes, and bodies in the ventral visual pathway of infants. | Kosakowski HL, Cohen MA, Takahashi A, Keil B, Kanwisher N, Saxe R | Current biology : CB | 34784506 | Curr Biol | 2022 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/34784506 |
| What is changing when: Decoding visual information in movies from human intracranial recordings. | Isik L, Singer J, Madsen JR, Kanwisher N, Kreiman G | NeuroImage | 28823828 | Neuroimage | 2018 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/28823828 |
| Divergence in the functional organization of human and macaque auditory cortex revealed by fMRI responses to harmonic tones. | Norman-Haignere SV, Kanwisher N, McDermott JH, Conway BR | Nature neuroscience | 31182868 | Nat Neurosci | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/31182868 |
| Representational similarity precedes category selectivity in the developing ventral visual pathway. | Cohen MA, Dilks DD, Koldewyn K, Weigelt S, Feather J, Kell AJ, Keil B, Fischl B, Zöllei L, Wald L, Saxe R, Kanwisher N | NeuroImage | 31077844 | Neuroimage | 2019 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/31077844 |
| Facephenes and rainbows: Causal evidence for functional and anatomical specificity of face and color processing in the human brain. | Schalk G, Kapeller C, Guger C, Ogawa H, Hiroshima S, Lafer-Sousa R, Saygin ZM, Kamada K, Kanwisher N | Proceedings of the National Academy of Sciences of the United States of America | 29087337 | Proc Natl Acad Sci U S A | 2017 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/29087337 |
| Toward a universal decoder of linguistic meaning from brain activation. | Pereira F, Lou B, Pritchett B, Ritter S, Gershman SJ, Kanwisher N, Botvinick M, Fedorenko E | Nature communications | 29511192 | Nat Commun | 2018 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/29511192 |
| A neural population selective for song in human auditory cortex. | Norman-Haignere SV, Feather J, Boebinger D, Brunner P, Ritaccio A, McDermott JH, Schalk G, Kanwisher N | Current biology : CB | 35349804 | Curr Biol | 2022 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/35349804 |
| Using artificial neural networks to ask 'why' questions of minds and brains. | Kanwisher N, Khosla M, Dobs K | Trends in neurosciences | 36658072 | Trends Neurosci | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36658072 |
| Invariant representation of physical stability in the human brain. | Pramod RT, Cohen MA, Tenenbaum JB, Kanwisher N | eLife | 35635277 | Elife | 2022 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/35635277 |
| Approximating Human-Level 3D Visual Inferences With Deep Neural Networks. | O'Connell TP, Bonnen T, Friedman Y, Tewari A, Sitzmann V, Tenenbaum JB, Kanwisher N | Open mind : discoveries in cognitive science | 40013087 | Open Mind (Camb) | 2025 | https://www.ncbi.nlm.nih.gov/pubmed/40013087 |
| Natural display of nuclear-encoded RNA on the cell surface and its impact on cell interaction. | Huang N, Fan X, Zaleta-Rivera K, Nguyen TC, Zhou J, Luo Y, Gao J, Fang RH, Yan Z, Chen ZB, Zhang L, Zhong S | Genome biology | 32907628 | Genome Biol | 2020 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/32907628 |
| RNAs as Proximity-Labeling Media for Identifying Nuclear Speckle Positions Relative to the Genome. | Chen W, Yan Z, Li S, Huang N, Huang X, Zhang J, Zhong S | iScience | 30240742 | iScience | 2018 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/30240742 |
| RNA, Action through Interactions. | Nguyen TC, Zaleta-Rivera K, Huang X, Dai X, Zhong S | Trends in genetics : TIG | 30177410 | Trends Genet | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30177410 |
| SMARCAD1 Contributes to the Regulation of Naive Pluripotency by Interacting with Histone Citrullination. | Xiao S, Lu J, Sridhar B, Cao X, Yu P, Zhao T, Chen CC, McDee D, Sloofman L, Wang Y, Rivas-Astroza M, Telugu BPVL, Levasseur D, Zhang K, Liang H, Zhao JC, Tanaka TS, Stormo G, Zhong S | Cell reports | 28355564 | Cell Rep | 2017 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/28355564 |
| Isolation and Profiling of Human Primary Mesenteric Arterial Endothelial Cells at the Transcriptome Level. | Malhi NK, Luo Y, Tang X, Sriram K, Calandrelli R, Zhong S, Chen ZB | Journal of visualized experiments : JoVE | 35343966 | J Vis Exp | 2022 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/35343966 |
| GIVE: portable genome browsers for personal websites. | Cao X, Yan Z, Wu Q, Zheng A, Zhong S | Genome biology | 30016975 | Genome Biol | 2018 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/30016975 |
| GITAR: An Open Source Tool for Analysis and Visualization of Hi-C Data. | Calandrelli R, Wu Q, Guan J, Zhong S | Genomics, proteomics & bioinformatics | 30553884 | Genomics Proteomics Bioinformatics | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30553884 |
| Mapping RNA-RNA interactome and RNA structure in vivo by MARIO. | Nguyen TC, Cao X, Yu P, Xiao S, Lu J, Biase FH, Sridhar B, Huang N, Zhang K, Zhong S | Nature communications | 27338251 | Nat Commun | 2016 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/27338251 |
| From structure to function, how bioinformatics help to reveal functions of our genomes. | Zheng X, Zhong S | Genome biology | 28950915 | Genome Biol | 2017 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/28950915 |
| Rainbow-Seq: Combining Cell Lineage Tracing with Single-Cell RNA Sequencing in Preimplantation Embryos. | Biase FH, Wu Q, Calandrelli R, Rivas-Astroza M, Zhou S, Chen Z, Zhong S | iScience | 30267678 | iScience | 2018 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/30267678 |
| Genome-wide colocalization of RNA-DNA interactions and fusion RNA pairs. | Yan Z, Huang N, Wu W, Chen W, Jiang Y, Chen J, Huang X, Wen X, Xu J, Jin Q, Zhang K, Chen Z, Chien S, Zhong S | Proceedings of the National Academy of Sciences of the United States of America | 30718424 | Proc Natl Acad Sci U S A | 2019 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/30718424 |
| Genome-wide analysis of the interplay between chromatin-associated RNA and 3D genome organization in human cells. | Calandrelli R, Wen X, Charles Richard JL, Luo Z, Nguyen TC, Chen CJ, Qi Z, Xue S, Chen W, Yan Z, Wu W, Zaleta-Rivera K, Hu R, Yu M, Wang Y, Li W, Ma J, Ren B, Zhong S | Nature communications | 37845234 | Nat Commun | 2023 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/37845234 |
| Pattern-based Search of Epigenomic Data Using GeNemo. | Zheng A, Cao X, Zhong S | Journal of visualized experiments : JoVE | 29053670 | J Vis Exp | 2017 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/29053670 |
| Suppression of Endothelial AGO1 Promotes Adipose Tissue Browning and Improves Metabolic Dysfunction. | Tang X, Miao Y, Luo Y, Sriram K, Qi Z, Lin FM, Gu Y, Lai CH, Hsu CY, Peterson KL, Van Keuren-Jensen K, Fueger PT, Yeo GW, Natarajan R, Zhong S, Chen ZB | Circulation | 32393053 | Circulation | 2020 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/32393053 |
| Heat-inducible CAR-T overcomes adverse mechanical tumor microenvironment in a 3D bioprinted glioblastoma model. | Tang M, Qu Y, He P, Yao E, Guo T, Yu D, Zhang N, Kiratitanaporn W, Sun Y, Liu L, Wang Y, Chen S | Materials today. Bio | 38765247 | Mater Today Bio | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38765247 |
| Systematic Mapping of RNA-Chromatin Interactions In Vivo. | Sridhar B, Rivas-Astroza M, Nguyen TC, Chen W, Yan Z, Cao X, Hebert L, Zhong S | Current biology : CB | 28132817 | Curr Biol | 2017 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/28132817 |
| GeNemo: a search engine for web-based functional genomic data. | Zhang Y, Cao X, Zhong S | Nucleic acids research | 27098038 | Nucleic Acids Res | 2016 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/27098038 |
| A likelihood approach to testing hypotheses on the co-evolution of epigenome and genome. | Lu J, Cao X, Zhong S | PLoS computational biology | 30586383 | PLoS Comput Biol | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30586383 |
| Mapping RNA-chromatin interactions by sequencing with iMARGI. | Wu W, Yan Z, Nguyen TC, Bouman Chen Z, Chien S, Zhong S | Nature protocols | 31619811 | Nat Protoc | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31619811 |
| Stress-induced RNA-chromatin interactions promote endothelial dysfunction. | Calandrelli R, Xu L, Luo Y, Wu W, Fan X, Nguyen T, Chen CJ, Sriram K, Tang X, Burns AB, Natarajan R, Chen ZB, Zhong S | Nature communications | 33060583 | Nat Commun | 2020 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/33060583 |
| HDAC6 mediates an aggresome-like mechanism for NLRP3 and pyrin inflammasome activation. | Magupalli VG, Negro R, Tian Y, Hauenstein AV, Di Caprio G, Skillern W, Deng Q, Orning P, Alam HB, Maliga Z, Sharif H, Hu JJ, Evavold CL, Kagan JC, Schmidt FI, Fitzgerald KA, Kirchhausen T, Li Y, Wu H | Science (New York, N.Y.) | 32943500 | Science | 2020 Sep 18 | https://www.ncbi.nlm.nih.gov/pubmed/32943500 |
| Mechanism and Regulation of Gasdermin-Mediated Cell Death. | Xia S, Hollingsworth LR 4th, Wu H | Cold Spring Harbor perspectives in biology | 31451512 | Cold Spring Harb Perspect Biol | 2020 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/31451512 |
| The Structure and Dynamics of Higher-Order Assemblies: Amyloids, Signalosomes, and Granules. | Wu H, Fuxreiter M | Cell | 27203110 | Cell | 2016 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/27203110 |
| The Structure of the Necrosome RIPK1-RIPK3 Core, a Human Hetero-Amyloid Signaling Complex. | Mompeán M, Li W, Li J, Laage S, Siemer AB, Bozkurt G, Wu H, McDermott AE | Cell | 29681455 | Cell | 2018 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/29681455 |
| Pathogen blockade of TAK1 triggers caspase-8-dependent cleavage of gasdermin D and cell death. | Orning P, Weng D, Starheim K, Ratner D, Best Z, Lee B, Brooks A, Xia S, Wu H, Kelliher MA, Berger SB, Gough PJ, Bertin J, Proulx MM, Goguen JD, Kayagaki N, Fitzgerald KA, Lien E | Science (New York, N.Y.) | 30361383 | Science | 2018 Nov 30 | https://www.ncbi.nlm.nih.gov/pubmed/30361383 |
| CIDE domains form functionally important higher-order assemblies for DNA fragmentation. | Choi JY, Qiao Q, Hong SH, Kim CM, Jeong JH, Kim YG, Jung YK, Wu H, Park HH | Proceedings of the National Academy of Sciences of the United States of America | 28652364 | Proc Natl Acad Sci U S A | 2017 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/28652364 |
| AID Recognizes Structured DNA for Class Switch Recombination. | Qiao Q, Wang L, Meng FL, Hwang JK, Alt FW, Wu H | Molecular cell | 28757211 | Mol Cell | 2017 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/28757211 |
| The Pore-Forming Protein Gasdermin D Regulates Interleukin-1 Secretion from Living Macrophages. | Evavold CL, Ruan J, Tan Y, Xia S, Wu H, Kagan JC | Immunity | 29195811 | Immunity | 2018 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/29195811 |
| Structural mechanisms of inflammasome assembly. | Lu A, Wu H | The FEBS journal | 25354325 | FEBS J | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25354325 |
| Cryo-EM structure of the activated NAIP2-NLRC4 inflammasome reveals nucleated polymerization. | Zhang L, Chen S, Ruan J, Wu J, Tong AB, Yin Q, Li Y, David L, Lu A, Wang WL, Marks C, Ouyang Q, Zhang X, Mao Y, Wu H | Science (New York, N.Y.) | 26449474 | Science | 2015 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/26449474 |
| Higher-order assemblies in innate immune and inflammatory signaling: A general principle in cell biology. | Shi M, Zhang P, Vora SM, Wu H | Current opinion in cell biology | 32272435 | Curr Opin Cell Biol | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32272435 |
| Conformational flexibility and inhibitor binding to unphosphorylated interleukin-1 receptor-associated kinase 4 (IRAK4). | Wang L, Ferrao R, Li Q, Hatcher JM, Choi HG, Buhrlage SJ, Gray NS, Wu H | The Journal of biological chemistry | 30679311 | J Biol Chem | 2019 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/30679311 |
| SERPINB1-mediated checkpoint of inflammatory caspase activation. | Choi YJ, Kim S, Choi Y, Nielsen TB, Yan J, Lu A, Ruan J, Lee HR, Wu H, Spellberg B, Jung JU | Nature immunology | 30692621 | Nat Immunol | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30692621 |
| Publisher Correction: SERPINB1-mediated checkpoint of inflammatory caspase activation. | Choi YJ, Kim S, Choi Y, Nielsen TB, Yan J, Lu A, Ruan J, Lee HR, Wu H, Spellberg B, Jung JU | Nature immunology | 30846880 | Nat Immunol | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30846880 |
| Disulfiram use is associated with lower risk of COVID-19: A retrospective cohort study. | Fillmore N, Bell S, Shen C, Nguyen V, La J, Dubreuil M, Strymish J, Brophy M, Mehta G, Wu H, Lieberman J, Do N, Sander C | PloS one | 34710137 | PLoS One | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34710137 |
| NINJ1 mediates plasma membrane rupture by cutting and releasing membrane disks. | David L, Borges JP, Hollingsworth LR, Volchuk A, Jansen I, Garlick E, Steinberg BE, Wu H | Cell | 38614101 | Cell | 2024 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/38614101 |
| The palmitoylation of gasdermin D directs its membrane translocation and pore formation during pyroptosis. | Balasubramanian A, Hsu AY, Ghimire L, Tahir M, Devant P, Fontana P, Du G, Liu X, Fabin D, Kambara H, Xie X, Liu F, Hasegawa T, Xu R, Yu H, Chen M, Kolakowski S, Trauger S, Larsen MR, Wei W, Wu H, Kagan JC, Lieberman J, Luo HR | Science immunology | 38530158 | Sci Immunol | 2024 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/38530158 |
| Assembly mechanism of the CARMA1-BCL10-MALT1-TRAF6 signalosome. | David L, Li Y, Ma J, Garner E, Zhang X, Wu H | Proceedings of the National Academy of Sciences of the United States of America | 29382759 | Proc Natl Acad Sci U S A | 2018 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/29382759 |
| Higher-Order Clustering of the Transmembrane Anchor of DR5 Drives Signaling. | Pan L, Fu TM, Zhao W, Zhao L, Chen W, Qiu C, Liu W, Liu Z, Piai A, Fu Q, Chen S, Wu H, Chou JJ | Cell | 30827683 | Cell | 2019 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/30827683 |
| Cryo-EM Structure of Caspase-8 Tandem DED Filament Reveals Assembly and Regulation Mechanisms of the Death-Inducing Signaling Complex. | Fu TM, Li Y, Lu A, Li Z, Vajjhala PR, Cruz AC, Srivastava DB, DiMaio F, Penczek PA, Siegel RM, Stacey KJ, Egelman EH, Wu H | Molecular cell | 27746017 | Mol Cell | 2016 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/27746017 |
| Understanding CARD Tricks in Apoptosomes. | Wang L, Qiao Q, Wu H | Structure (London, England : 1993) | 28380338 | Structure | 2017 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/28380338 |
| Gasdermin D activity in inflammation and host defense. | Lieberman J, Wu H, Kagan JC | Science immunology | 31492708 | Sci Immunol | 2019 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/31492708 |
| STING condensates on ER limit IFN response. | Andreeva L, Wu H | Nature cell biology | 33833430 | Nat Cell Biol | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33833430 |
| Dipeptidyl peptidase 9 sets a threshold for CARD8 inflammasome formation by sequestering its active C-terminal fragment. | Sharif H, Hollingsworth LR, Griswold AR, Hsiao JC, Wang Q, Bachovchin DA, Wu H | Immunity | 34019797 | Immunity | 2021 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/34019797 |
| Mechanism of filament formation in UPA-promoted CARD8 and NLRP1 inflammasomes. | Robert Hollingsworth L, David L, Li Y, Griswold AR, Ruan J, Sharif H, Fontana P, Orth-He EL, Fu TM, Bachovchin DA, Wu H | Nature communications | 33420033 | Nat Commun | 2021 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/33420033 |
| An Acetylation Switch of the NLRP3 Inflammasome Regulates Aging-Associated Chronic Inflammation and Insulin Resistance. | He M, Chiang HH, Luo H, Zheng Z, Qiao Q, Wang L, Tan M, Ohkubo R, Mu WC, Zhao S, Wu H, Chen D | Cell metabolism | 32032542 | Cell Metab | 2020 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/32032542 |
| Structural principles of B cell antigen receptor assembly. | Dong Y, Pi X, Bartels-Burgahn F, Saltukoglu D, Liang Z, Yang J, Alt FW, Reth M, Wu H | Nature | 36228656 | Nature | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36228656 |
| A structural atlas of death domain fold proteins reveals their versatile roles in biology and function. | Wu EJ, Kandalkar AT, Ehrmann JF, Tong AB, Zhang J, Cong Q, Wu H | Proceedings of the National Academy of Sciences of the United States of America | 39977327 | Proc Natl Acad Sci U S A | 2025 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/39977327 |
| ROS-dependent S-palmitoylation activates cleaved and intact gasdermin D. | Du G, Healy LB, David L, Walker C, El-Baba TJ, Lutomski CA, Goh B, Gu B, Pi X, Devant P, Fontana P, Dong Y, Ma X, Miao R, Balasubramanian A, Puthenveetil R, Banerjee A, Luo HR, Kagan JC, Oh SF, Robinson CV, Lieberman J, Wu H | Nature | 38599239 | Nature | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38599239 |
| A single domain antibody fragment that recognizes the adaptor ASC defines the role of ASC domains in inflammasome assembly. | Schmidt FI, Lu A, Chen JW, Ruan J, Tang C, Wu H, Ploegh HL | The Journal of experimental medicine | 27069117 | J Exp Med | 2016 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/27069117 |
| Mechanism of ubiquitin transfer promoted by TRAF6. | Fu TM, Shen C, Li Q, Zhang P, Wu H | Proceedings of the National Academy of Sciences of the United States of America | 29432170 | Proc Natl Acad Sci U S A | 2018 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/29432170 |
| Inflammation NODs to Antagonists of RIP2-XIAP Interaction. | Xia S, Fu TM, Wu H | Molecular cell | 29452633 | Mol Cell | 2018 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/29452633 |
| Structural and mechanistic elucidation of inflammasome signaling by cryo-EM. | Shen C, Sharif H, Xia S, Wu H | Current opinion in structural biology | 31128494 | Curr Opin Struct Biol | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31128494 |
| Mechanism of TRPM2 channel gating revealed by cryo-EM. | Xia S, Wang L, Fu TM, Wu H | The FEBS journal | 31144442 | FEBS J | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31144442 |
| Monitoring gasdermin pore formation in vitro. | Xia S, Ruan J, Wu H | Methods in enzymology | 31455540 | Methods Enzymol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31455540 |
| Mimicry by a viral RHIM. | Mompeán M, Bozkurt G, Wu H | EMBO reports | 30665943 | EMBO Rep | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30665943 |
| Molecular mechanism for NLRP6 inflammasome assembly and activation. | Shen C, Lu A, Xie WJ, Ruan J, Negro R, Egelman EH, Fu TM, Wu H | Proceedings of the National Academy of Sciences of the United States of America | 30674671 | Proc Natl Acad Sci U S A | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30674671 |
| Structural mechanism for NEK7-licensed activation of NLRP3 inflammasome. | Sharif H, Wang L, Wang WL, Magupalli VG, Andreeva L, Qiao Q, Hauenstein AV, Wu Z, Núñez G, Mao Y, Wu H | Nature | 31189953 | Nature | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31189953 |
| FDA-approved disulfiram inhibits pyroptosis by blocking gasdermin D pore formation. | Hu JJ, Liu X, Xia S, Zhang Z, Zhang Y, Zhao J, Ruan J, Luo X, Lou X, Bai Y, Wang J, Hollingsworth LR, Magupalli VG, Zhao L, Luo HR, Kim J, Lieberman J, Wu H | Nature immunology | 32367036 | Nat Immunol | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32367036 |
| NLRP3 cages revealed by full-length mouse NLRP3 structure control pathway activation. | Andreeva L, David L, Rawson S, Shen C, Pasricha T, Pelegrin P, Wu H | Cell | 34861190 | Cell | 2021 Dec 22 | https://www.ncbi.nlm.nih.gov/pubmed/34861190 |
| Gasdermin D pore structure reveals preferential release of mature interleukin-1. | Xia S, Zhang Z, Magupalli VG, Pablo JL, Dong Y, Vora SM, Wang L, Fu TM, Jacobson MP, Greka A, Lieberman J, Ruan J, Wu H | Nature | 33883744 | Nature | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33883744 |
| Chopped! Newfound GSDMD cleavage facilitates tolerance to food allergens. | Healy LB, Du G, Wu H | Trends in immunology | 37414717 | Trends Immunol | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37414717 |
| Structure of cytoplasmic ring of nuclear pore complex by integrative cryo-EM and AlphaFold. | Fontana P, Dong Y, Pi X, Tong AB, Hecksel CW, Wang L, Fu TM, Bustamante C, Wu H | Science (New York, N.Y.) | 35679401 | Science | 2022 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/35679401 |
| Inflammasome-activated gasdermin D causes pyroptosis by forming membrane pores. | Liu X, Zhang Z, Ruan J, Pan Y, Magupalli VG, Wu H, Lieberman J | Nature | 27383986 | Nature | 2016 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/27383986 |
| Phase separation drives RNA virus-induced activation of the NLRP6 inflammasome. | Shen C, Li R, Negro R, Cheng J, Vora SM, Fu TM, Wang A, He K, Andreeva L, Gao P, Tian Z, Flavell RA, Zhu S, Wu H | Cell | 34678144 | Cell | 2021 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/34678144 |
| DPP9 sequesters the C terminus of NLRP1 to repress inflammasome activation. | Hollingsworth LR, Sharif H, Griswold AR, Fontana P, Mintseris J, Dagbay KB, Paulo JA, Gygi SP, Bachovchin DA, Wu H | Nature | 33731932 | Nature | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33731932 |
| Cryo-EM structures of ASC and NLRC4 CARD filaments reveal a unified mechanism of nucleation and activation of caspase-1. | Li Y, Fu TM, Lu A, Witt K, Ruan J, Shen C, Wu H | Proceedings of the National Academy of Sciences of the United States of America | 30279182 | Proc Natl Acad Sci U S A | 2018 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/30279182 |
| Molecular basis of caspase-1 polymerization and its inhibition by a new capping mechanism. | Lu A, Li Y, Schmidt FI, Yin Q, Chen S, Fu TM, Tong AB, Ploegh HL, Mao Y, Wu H | Nature structural & molecular biology | 27043298 | Nat Struct Mol Biol | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27043298 |
| Cryo-EM structure of the gasdermin A3 membrane pore. | Ruan J, Xia S, Liu X, Lieberman J, Wu H | Nature | 29695864 | Nature | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29695864 |
| Structures and gating mechanism of human TRPM2. | Wang L, Fu TM, Zhou Y, Xia S, Greka A, Wu H | Science (New York, N.Y.) | 30467180 | Science | 2018 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/30467180 |
| Structures and functions of the inflammasome engine. | Wang L, Sharif H, Vora SM, Zheng Y, Wu H | The Journal of allergy and clinical immunology | 34092352 | J Allergy Clin Immunol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34092352 |
| Structural transitions enable interleukin-18 maturation and signaling. | Dong Y, Bonin JP, Devant P, Liang Z, Sever AIM, Mintseris J, Aramini JM, Du G, Gygi SP, Kagan JC, Kay LE, Wu H | Immunity | 38733997 | Immunity | 2024 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/38733997 |
| Exome sequencing implicates genetic disruption of prenatal neuro-gliogenesis in sporadic congenital hydrocephalus. | Jin SC, Dong W, Kundishora AJ, Panchagnula S, Moreno-De-Luca A, Furey CG, Allocco AA, Walker RL, Nelson-Williams C, Smith H, Dunbar A, Conine S, Lu Q, Zeng X, Sierant MC, Knight JR, Sullivan W, Duy PQ, DeSpenza T, Reeves BC, Karimy JK, Marlier A, Castaldi C, Tikhonova IR, Li B, Peña HP, Broach JR, Kabachelor EM, Ssenyonga P, Hehnly C, Ge L, Keren B, Timberlake AT, Goto J, Mangano FT, Johnston JM, Butler WE, Warf BC, Smith ER, Schiff SJ, Limbrick DD Jr, Heuer G, Jackson EM, Iskandar BJ, Mane S, Haider S, Guclu B, Bayri Y, Sahin Y, Duncan CC, Apuzzo MLJ, DiLuna ML, Hoffman EJ, Sestan N, Ment LR, Alper SL, Bilguvar K, Geschwind DH, Günel M, Lifton RP, Kahle KT | Nature medicine | 33077954 | Nat Med | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33077954 |
| Design of a mobile, homogeneous, and efficient electromagnet with a large field of view for neonatal low-field MRI. | Lother S, Schiff SJ, Neuberger T, Jakob PM, Fidler F | Magma (New York, N.Y.) | 26861046 | MAGMA | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26861046 |
| Separating Putative Pathogens from Background Contamination with Principal Orthogonal Decomposition: Evidence for Leptospira in the Ugandan Neonatal Septisome. | Schiff SJ, Kiwanuka J, Riggio G, Nguyen L, Mu K, Sproul E, Bazira J, Mwanga-Amumpaire J, Tumusiime D, Nyesigire E, Lwanga N, Bogale KT, Kapur V, Broach JR, Morton SU, Warf BC, Poss M | Frontiers in medicine | 27379237 | Front Med (Lausanne) | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27379237 |
| Design of a sustainable prepolarizing magnetic resonance imaging system for infant hydrocephalus. | Obungoloch J, Harper JR, Consevage S, Savukov IM, Neuberger T, Tadigadapa S, Schiff SJ | Magma (New York, N.Y.) | 29644479 | MAGMA | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/29644479 |
| A Systematic Review of Human Paenibacillus Infections and Comparison of Adult and Pediatric Cases. | Smith D, Bastug K, Burgoine K, Broach JR, Hammershaimb EA, Hehnly C, Morton SU, Osman M, Schiff SJ, Ericson JE | The Pediatric infectious disease journal | 39705610 | Pediatr Infect Dis J | 2025 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/39705610 |
| Cytomegalovirus infections in infants in Uganda: Newborn-mother pairs, neonates with sepsis, and infants with hydrocephalus. | Hehnly C, Ssentongo P, Bebell LM, Burgoine K, Bazira J, Fronterre C, Kumbakumba E, Mulondo R, Mbabazi-Kabachelor E, Morton SU, Ngonzi J, Ochora M, Olupot-Olupot P, Mugamba J, Onen J, Roberts DJ, Sheldon K, Sinnar SA, Smith J, Ssenyonga P, Kiwanuka J, Paulson JN, Meier FA, Ericson JE, Broach JR, Schiff SJ | International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases | 35150915 | Int J Infect Dis | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35150915 |
| Economic burden of neonatal sepsis in sub-Saharan Africa. | Ranjeva SL, Warf BC, Schiff SJ | BMJ global health | 29564153 | BMJ Glob Health | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29564153 |
| Complete Genome Sequences of the Human Pathogen Paenibacillus thiaminolyticus Mbale and Type Strain P. thiaminolyticus NRRL B-4156. | Hehnly C, Zhang L, Paulson JN, Almeida M, von Bredow B, Wijetunge DSS, Galperin MY, Sheldon K, Schiff SJ, Broach JR | Microbiology resource announcements | 32273361 | Microbiol Resour Announc | 2020 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/32273361 |
| Inflammation in acquired hydrocephalus: pathogenic mechanisms and therapeutic targets. | Karimy JK, Reeves BC, Damisah E, Duy PQ, Antwi P, David W, Wang K, Schiff SJ, Limbrick DD Jr, Alper SL, Warf BC, Nedergaard M, Simard JM, Kahle KT | Nature reviews. Neurology | 32152460 | Nat Rev Neurol | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32152460 |
| Global, regional and national epidemiology and prevalence of child stunting, wasting and underweight in low- and middle-income countries, 2006-2018. | Ssentongo P, Ssentongo AE, Ba DM, Ericson JE, Na M, Gao X, Fronterre C, Chinchilli VM, Schiff SJ | Scientific reports | 33664313 | Sci Rep | 2021 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/33664313 |
| The Problem of Microbial Dark Matter in Neonatal Sepsis. | Sinnar SA, Schiff SJ | Emerging infectious diseases | 33080169 | Emerg Infect Dis | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33080169 |
| mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis. | Movassagh M, Morton SU, Hehnly C, Smith J, Doan TT, Irizarry R, Broach JR, Schiff SJ, Bailey JA, Paulson JN | BMC genomics | 35698050 | BMC Genomics | 2022 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/35698050 |
| Type IV Pili Are a Critical Virulence Factor in Clinical Isolates of Paenibacillus thiaminolyticus. | Hehnly C, Shi A, Ssentongo P, Zhang L, Isaacs A, Morton SU, Streck N, Erdmann-Gilmore P, Tolstoy I, Townsend RR, Limbrick DD, Paulson JN, Ericson JE, Galperin MY, Schiff SJ, Broach JR | mBio | 36374038 | mBio | 2022 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/36374038 |
| Paenibacillus spp infection among infants with postinfectious hydrocephalus in Uganda: an observational case-control study. | Morton SU, Hehnly C, Burgoine K, Ssentongo P, Ericson JE, Kumar MS, Hagmann C, Fronterre C, Smith J, Movassagh M, Streck N, Bebell LM, Bazira J, Kumbakumba E, Bajunirwe F, Mulondo R, Mbabazi-Kabachelor E, Nsubuga BK, Natukwatsa D, Nalule E, Magombe J, Erickson T, Ngonzi J, Ochora M, Olupot-Olupot P, Onen J, Ssenyonga P, Mugamba J, Warf BC, Kulkarni AV, Lane J, Whalen AJ, Zhang L, Sheldon K, Meier FA, Kiwanuka J, Broach JR, Paulson JN, Schiff SJ | The Lancet. Microbe | 37348522 | Lancet Microbe | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37348522 |
| Correction to Lancet Microbe 2023; published online June 19. https://doi.org/10.1016/S2666-5247(23)00106-4. | The Lancet. Microbe | 37414068 | Lancet Microbe | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37414068 | |
| Changes in Ugandan Climate Rainfall at the Village and Forest Level. | Ssentongo P, Muwanguzi AJB, Eden U, Sauer T, Bwanga G, Kateregga G, Aribo L, Ojara M, Mugerwa WK, Schiff SJ | Scientific reports | 29476058 | Sci Rep | 2018 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/29476058 |
| Vaginal microbiome topic modeling of laboring Ugandan women with and without fever. | Movassagh M, Bebell LM, Burgoine K, Hehnly C, Zhang L, Moran K, Sheldon K, Sinnar SA, Mbabazi-Kabachelor E, Kumbakumba E, Bazira J, Ochora M, Mulondo R, Nsubuga BK, Weeks AD, Gladstone M, Olupot-Olupot P, Ngonzi J, Roberts DJ, Meier FA, Irizarry RA, Broach JR, Schiff SJ, Paulson JN | NPJ biofilms and microbiomes | 34508087 | NPJ Biofilms Microbiomes | 2021 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/34508087 |
| Immune activation during Paenibacillus brain infection in African infants with frequent cytomegalovirus co-infection. | Isaacs AM, Morton SU, Movassagh M, Zhang Q, Hehnly C, Zhang L, Morales DM, Sinnar SA, Ericson JE, Mbabazi-Kabachelor E, Ssenyonga P, Onen J, Mulondo R, Hornig M, Warf BC, Broach JR, Townsend RR, Limbrick DD Jr, Paulson JN, Schiff SJ | iScience | 33912816 | iScience | 2021 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/33912816 |
| Poor surgical outcomes following Paenibacillus infant infectious hydrocephalus. | Ericson JE, Natukwatsa D, Ssenyonga P, Onen J, Mugamba J, Mulondo R, Morton SU, Movassagh M, Templeton K, Hehnly C, Mbabazi-Kabachelor E, Kulkarni AV, Warf BC, Broach JR, Paulson JN, Schiff SJ | Journal of neurosurgery. Pediatrics | 40378477 | J Neurosurg Pediatr | 2025 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/40378477 |
| Prevalence and correlates of MRSA and MSSA nasal carriage at a Ugandan regional referral hospital. | Bebell LM, Ayebare A, Boum Y 2nd, Siedner MJ, Bazira J, Schiff SJ, Metlay JP, Bangsberg DR, Ttendo S, Firth PG | The Journal of antimicrobial chemotherapy | 27999030 | J Antimicrob Chemother | 2017 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/27999030 |
| Paenibacillus infection with frequent viral coinfection contributes to postinfectious hydrocephalus in Ugandan infants. | Paulson JN, Williams BL, Hehnly C, Mishra N, Sinnar SA, Zhang L, Ssentongo P, Mbabazi-Kabachelor E, Wijetunge DSS, von Bredow B, Mulondo R, Kiwanuka J, Bajunirwe F, Bazira J, Bebell LM, Burgoine K, Couto-Rodriguez M, Ericson JE, Erickson T, Ferrari M, Gladstone M, Guo C, Haran M, Hornig M, Isaacs AM, Kaaya BN, Kangere SM, Kulkarni AV, Kumbakumba E, Li X, Limbrick DD Jr, Magombe J, Morton SU, Mugamba J, Ng J, Olupot-Olupot P, Onen J, Peterson MR, Roy F, Sheldon K, Townsend R, Weeks AD, Whalen AJ, Quackenbush J, Ssenyonga P, Galperin MY, Almeida M, Atkins H, Warf BC, Lipkin WI, Broach JR, Schiff SJ | Science translational medicine | 32998967 | Sci Transl Med | 2020 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/32998967 |
| Neonatal Paenibacilliosis: Paenibacillus Infection as a Novel Cause of Sepsis in Term Neonates With High Risk of Sequelae in Uganda. | Ericson JE, Burgoine K, Kumbakumba E, Ochora M, Hehnly C, Bajunirwe F, Bazira J, Fronterre C, Hagmann C, Kulkarni AV, Kumar MS, Magombe J, Mbabazi-Kabachelor E, Morton SU, Movassagh M, Mugamba J, Mulondo R, Natukwatsa D, Kaaya BN, Olupot-Olupot P, Onen J, Sheldon K, Smith J, Ssentongo P, Ssenyonga P, Warf B, Wegoye E, Zhang L, Kiwanuka J, Paulson JN, Broach JR, Schiff SJ | Clinical infectious diseases : an official publication of the Infectious Diseases Society of America | 37279589 | Clin Infect Dis | 2023 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/37279589 |
| Trajectories of cell-cycle progression from fixed cell populations. | Gut G, Tadmor MD, Pe'er D, Pelkmans L, Liberali P | Nature methods | 26301842 | Nat Methods | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26301842 |
| Engineering γδT cells limits tonic signaling associated with chimeric antigen receptors. | Fisher J, Sharma R, Don DW, Barisa M, Hurtado MO, Abramowski P, Porter L, Day W, Borea R, Inglott S, Anderson J, Pe'er D | Science signaling | 31506382 | Sci Signal | 2019 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/31506382 |
| Recovering Gene Interactions from Single-Cell Data Using Data Diffusion. | van Dijk D, Sharma R, Nainys J, Yim K, Kathail P, Carr AJ, Burdziak C, Moon KR, Chaffer CL, Pattabiraman D, Bierie B, Mazutis L, Wolf G, Krishnaswamy S, Pe'er D | Cell | 29961576 | Cell | 2018 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/29961576 |
| Learning time-varying information flow from single-cell epithelial to mesenchymal transition data. | Krishnaswamy S, Zivanovic N, Sharma R, Pe'er D, Bodenmiller B | PloS one | 30372433 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30372433 |
| Negative Co-stimulation Constrains T Cell Differentiation by Imposing Boundaries on Possible Cell States. | Wei SC, Sharma R, Anang NAS, Levine JH, Zhao Y, Mancuso JJ, Setty M, Sharma P, Wang J, Pe'er D, Allison JP | Immunity | 30926234 | Immunity | 2019 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/30926234 |
| The emergent landscape of the mouse gut endoderm at single-cell resolution. | Nowotschin S, Setty M, Kuo YY, Liu V, Garg V, Sharma R, Simon CS, Saiz N, Gardner R, Boutet SC, Church DM, Hoodless PA, Hadjantonakis AK, Pe'er D | Nature | 30959515 | Nature | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30959515 |
| An Immune Atlas of Clear Cell Renal Cell Carcinoma. | Chevrier S, Levine JH, Zanotelli VRT, Silina K, Schulz D, Bacac M, Ries CH, Ailles L, Jewett MAS, Moch H, van den Broek M, Beisel C, Stadler MB, Gedye C, Reis B, Pe'er D, Bodenmiller B | Cell | 28475899 | Cell | 2017 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/28475899 |
| Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses. | Lavin Y, Kobayashi S, Leader A, Amir ED, Elefant N, Bigenwald C, Remark R, Sweeney R, Becker CD, Levine JH, Meinhof K, Chow A, Kim-Shulze S, Wolf A, Medaglia C, Li H, Rytlewski JA, Emerson RO, Solovyov A, Greenbaum BD, Sanders C, Vignali M, Beasley MB, Flores R, Gnjatic S, Pe'er D, Rahman A, Amit I, Merad M | Cell | 28475900 | Cell | 2017 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/28475900 |
| Detection of minimal residual disease in B lymphoblastic leukemia using viSNE. | DiGiuseppe JA, Tadmor MD, Pe'er D | Cytometry. Part B, Clinical cytometry | 25974871 | Cytometry B Clin Cytom | 2015 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/25974871 |
| Wishbone identifies bifurcating developmental trajectories from single-cell data. | Setty M, Tadmor MD, Reich-Zeliger S, Angel O, Salame TM, Kathail P, Choi K, Bendall S, Friedman N, Pe'er D | Nature biotechnology | 27136076 | Nat Biotechnol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27136076 |
| Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis. | Levine JH, Simonds EF, Bendall SC, Davis KL, Amir el-AD, Tadmor MD, Litvin O, Fienberg HG, Jager A, Zunder ER, Finck R, Gedman AL, Radtke I, Downing JR, Pe'er D, Nolan GP | Cell | 26095251 | Cell | 2015 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/26095251 |
| Dirichlet Process Mixture Model for Correcting Technical Variation in Single-Cell Gene Expression Data. | Prabhakaran S, Azizi E, Carr A, Pe'er D | JMLR workshop and conference proceedings | 29928470 | JMLR Workshop Conf Proc | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/29928470 |
| Notch3 signaling promotes tumor cell adhesion and progression in a murine epithelial ovarian cancer model. | Price JC, Azizi E, Naiche LA, Parvani JG, Shukla P, Kim S, Slack-Davis JK, Pe'er D, Kitajewski JK | PloS one | 32525899 | PLoS One | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32525899 |
| Regenerative lineages and immune-mediated pruning in lung cancer metastasis. | Laughney AM, Hu J, Campbell NR, Bakhoum SF, Setty M, Lavallée VP, Xie Y, Masilionis I, Carr AJ, Kottapalli S, Allaj V, Mattar M, Rekhtman N, Xavier JB, Mazutis L, Poirier JT, Rudin CM, Pe'er D, Massagué J | Nature medicine | 32042191 | Nat Med | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32042191 |
| Scalable microfluidics for single-cell RNA printing and sequencing. | Bose S, Wan Z, Carr A, Rizvi AH, Vieira G, Pe'er D, Sims PA | Genome biology | 26047807 | Genome Biol | 2015 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/26047807 |
| Distinct Cellular Mechanisms Underlie Anti-CTLA-4 and Anti-PD-1 Checkpoint Blockade. | Wei SC, Levine JH, Cogdill AP, Zhao Y, Anang NAS, Andrews MC, Sharma P, Wang J, Wargo JA, Pe'er D, Allison JP | Cell | 28803728 | Cell | 2017 Sep 7 | https://www.ncbi.nlm.nih.gov/pubmed/28803728 |
| Epigenetic plasticity cooperates with cell-cell interactions to direct pancreatic tumorigenesis. | Burdziak C, Alonso-Curbelo D, Walle T, Reyes J, Barriga FM, Haviv D, Xie Y, Zhao Z, Zhao CJ, Chen HA, Chaudhary O, Masilionis I, Choo ZN, Gao V, Luan W, Wuest A, Ho YJ, Wei Y, Quail DF, Koche R, Mazutis L, Chaligné R, Nawy T, Lowe SW, Pe'er D | Science (New York, N.Y.) | 37167403 | Science | 2023 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/37167403 |
| Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment. | Azizi E, Carr AJ, Plitas G, Cornish AE, Konopacki C, Prabhakaran S, Nainys J, Wu K, Kiseliovas V, Setty M, Choi K, Fromme RM, Dao P, McKenney PT, Wasti RC, Kadaveru K, Mazutis L, Rudensky AY, Pe'er D | Cell | 29961579 | Cell | 2018 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/29961579 |
| PhenoGraph and viSNE facilitate the identification of abnormal T-cell populations in routine clinical flow cytometric data. | DiGiuseppe JA, Cardinali JL, Rezuke WN, Pe'er D | Cytometry. Part B, Clinical cytometry | 28865188 | Cytometry B Clin Cytom | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28865188 |
| Characterization of cell fate probabilities in single-cell data with Palantir. | Setty M, Kiseliovas V, Levine J, Gayoso A, Mazutis L, Pe'er D | Nature biotechnology | 30899105 | Nat Biotechnol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30899105 |
| Do Gametes Woo? Evidence for Their Nonrandom Union at Fertilization. | Nadeau JH | Genetics | 28978771 | Genetics | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28978771 |
| Parent-of-origin effects of A1CF and AGO2 on testicular germ-cell tumors, testicular abnormalities, and fertilization bias. | Carouge D, Blanc V, Knoblaugh SE, Hunter RJ, Davidson NO, Nadeau JH | Proceedings of the National Academy of Sciences of the United States of America | 27582469 | Proc Natl Acad Sci U S A | 2016 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/27582469 |
| Contrasting genetic architectures in different mouse reference populations used for studying complex traits. | Buchner DA, Nadeau JH | Genome research | 25953951 | Genome Res | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25953951 |
| Genetics. Systems genetics. | Nadeau JH, Dudley AM | Science (New York, N.Y.) | 21350153 | Science | 2011 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/21350153 |
| A high performing brain-machine interface driven by low-frequency local field potentials alone and together with spikes. | Stavisky SD, Kao JC, Nuyujukian P, Ryu SI, Shenoy KV | Journal of neural engineering | 25946198 | J Neural Eng | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25946198 |
| Design of an implantable artificial dural window for chronic two-photon optical imaging in non-human primates. | Trautmann E, O'Shea DJ, Shrestha S, Lin S, Ryu S, Shenoy K | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 26738040 | Annu Int Conf IEEE Eng Med Biol Soc | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26738040 |
| Leveraging neural dynamics to extend functional lifetime of brain-machine interfaces. | Kao JC, Ryu SI, Shenoy KV | Scientific reports | 28784984 | Sci Rep | 2017 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/28784984 |
| Single-trial dynamics of motor cortex and their applications to brain-machine interfaces. | Kao JC, Nuyujukian P, Ryu SI, Churchland MM, Cunningham JP, Shenoy KV | Nature communications | 26220660 | Nat Commun | 2015 Jul 29 | https://www.ncbi.nlm.nih.gov/pubmed/26220660 |
| Discovering Precise Temporal Patterns in Large-Scale Neural Recordings through Robust and Interpretable Time Warping. | Williams AH, Poole B, Maheswaranathan N, Dhawale AK, Fisher T, Wilson CD, Brann DH, Trautmann EM, Ryu S, Shusterman R, Rinberg D, Ölveczky BP, Shenoy KV, Ganguli S | Neuron | 31786013 | Neuron | 2020 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/31786013 |
| Causal Role of Motor Preparation during Error-Driven Learning. | Vyas S, O'Shea DJ, Ryu SI, Shenoy KV | Neuron | 32053768 | Neuron | 2020 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/32053768 |
| Initial conditions combine with sensory evidence to induce decision-related dynamics in premotor cortex. | Boucher PO, Wang T, Carceroni L, Kane G, Shenoy KV, Chandrasekaran C | Nature communications | 37845221 | Nat Commun | 2023 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/37845221 |
| Cortical preparatory activity indexes learned motor memories. | Sun X, O'Shea DJ, Golub MD, Trautmann EM, Vyas S, Ryu SI, Shenoy KV | Nature | 35082444 | Nature | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35082444 |
| Neural Population Dynamics Underlying Motor Learning Transfer. | Vyas S, Even-Chen N, Stavisky SD, Ryu SI, Nuyujukian P, Shenoy KV | Neuron | 29456026 | Neuron | 2018 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/29456026 |
| Inferring single-trial neural population dynamics using sequential auto-encoders. | Pandarinath C, O'Shea DJ, Collins J, Jozefowicz R, Stavisky SD, Kao JC, Trautmann EM, Kaufman MT, Ryu SI, Hochberg LR, Henderson JM, Shenoy KV, Abbott LF, Sussillo D | Nature methods | 30224673 | Nat Methods | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30224673 |
| The need for calcium imaging in nonhuman primates: New motor neuroscience and brain-machine interfaces. | O'Shea DJ, Trautmann E, Chandrasekaran C, Stavisky S, Kao JC, Sahani M, Ryu S, Deisseroth K, Shenoy KV | Experimental neurology | 27511294 | Exp Neurol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27511294 |
| Vacillation, indecision and hesitation in moment-by-moment decoding of monkey motor cortex. | Kaufman MT, Churchland MM, Ryu SI, Shenoy KV | eLife | 25942352 | Elife | 2015 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/25942352 |
| Comparison of spike sorting and thresholding of voltage waveforms for intracortical brain-machine interface performance. | Christie BP, Tat DM, Irwin ZT, Gilja V, Nuyujukian P, Foster JD, Ryu SI, Shenoy KV, Thompson DE, Chestek CA | Journal of neural engineering | 25504690 | J Neural Eng | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25504690 |
| An Open Resource for Non-human Primate Optogenetics. | Tremblay S, Acker L, Afraz A, Albaugh DL, Amita H, Andrei AR, Angelucci A, Aschner A, Balan PF, Basso MA, Benvenuti G, Bohlen MO, Caiola MJ, Calcedo R, Cavanaugh J, Chen Y, Chen S, Chernov MM, Clark AM, Dai J, Debes SR, Deisseroth K, Desimone R, Dragoi V, Egger SW, Eldridge MAG, El-Nahal HG, Fabbrini F, Federer F, Fetsch CR, Fortuna MG, Friedman RM, Fujii N, Gail A, Galvan A, Ghosh S, Gieselmann MA, Gulli RA, Hikosaka O, Hosseini EA, Hu X, Hüer J, Inoue KI, Janz R, Jazayeri M, Jiang R, Ju N, Kar K, Klein C, Kohn A, Komatsu M, Maeda K, Martinez-Trujillo JC, Matsumoto M, Maunsell JHR, Mendoza-Halliday D, Monosov IE, Muers RS, Nurminen L, Ortiz-Rios M, O'Shea DJ, Palfi S, Petkov CI, Pojoga S, Rajalingham R, Ramakrishnan C, Remington ED, Revsine C, Roe AW, Sabes PN, Saunders RC, Scherberger H, Schmid MC, Schultz W, Seidemann E, Senova YS, Shadlen MN, Sheinberg DL, Siu C, Smith Y, Solomon SS, Sommer MA, Spudich JL, Stauffer WR, Takada M, Tang S, Thiele A, Treue S, Vanduffel W, Vogels R, Whitmire MP, Wichmann T, Wurtz RH, Xu H, Yazdan-Shahmorad A, Shenoy KV, DiCarlo JJ, Platt ML | Neuron | 33080229 | Neuron | 2020 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/33080229 |
| Motor Cortical Visuomotor Feedback Activity Is Initially Isolated from Downstream Targets in Output-Null Neural State Space Dimensions. | Stavisky SD, Kao JC, Ryu SI, Shenoy KV | Neuron | 28625485 | Neuron | 2017 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/28625485 |
| Augmenting intracortical brain-machine interface with neurally driven error detectors. | Even-Chen N, Stavisky SD, Kao JC, Ryu SI, Shenoy KV | Journal of neural engineering | 29130452 | J Neural Eng | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29130452 |
| Unsupervised Discovery of Demixed, Low-Dimensional Neural Dynamics across Multiple Timescales through Tensor Component Analysis. | Williams AH, Kim TH, Wang F, Vyas S, Ryu SI, Shenoy KV, Schnitzer M, Kolda TG, Ganguli S | Neuron | 29887338 | Neuron | 2018 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/29887338 |
| Brain-machine interface cursor position only weakly affects monkey and human motor cortical activity in the absence of arm movements. | Stavisky SD, Kao JC, Nuyujukian P, Pandarinath C, Blabe C, Ryu SI, Hochberg LR, Henderson JM, Shenoy KV | Scientific reports | 30397281 | Sci Rep | 2018 Nov 5 | https://www.ncbi.nlm.nih.gov/pubmed/30397281 |
| A neural network that finds a naturalistic solution for the production of muscle activity. | Sussillo D, Churchland MM, Kaufman MT, Shenoy KV | Nature neuroscience | 26075643 | Nat Neurosci | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26075643 |
| Power-saving design opportunities for wireless intracortical brain-computer interfaces. | Even-Chen N, Muratore DG, Stavisky SD, Hochberg LR, Henderson JM, Murmann B, Shenoy KV | Nature biomedical engineering | 32747834 | Nat Biomed Eng | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32747834 |
| Structure in Neural Activity during Observed and Executed Movements Is Shared at the Neural Population Level, Not in Single Neurons. | Jiang X, Saggar H, Ryu SI, Shenoy KV, Kao JC | Cell reports | 32783934 | Cell Rep | 2020 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/32783934 |
| Dendritic calcium signals in rhesus macaque motor cortex drive an optical brain-computer interface. | Trautmann EM, O'Shea DJ, Sun X, Marshel JH, Crow A, Hsueh B, Vesuna S, Cofer L, Bohner G, Allen W, Kauvar I, Quirin S, MacDougall M, Chen Y, Whitmire MP, Ramakrishnan C, Sahani M, Seidemann E, Ryu SI, Deisseroth K, Shenoy KV | Nature communications | 34140486 | Nat Commun | 2021 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/34140486 |
| Non-linear dimensionality reduction on extracellular waveforms reveals cell type diversity in premotor cortex. | Lee EK, Balasubramanian H, Tsolias A, Anakwe SU, Medalla M, Shenoy KV, Chandrasekaran C | eLife | 34355695 | Elife | 2021 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/34355695 |
| Tensor Analysis Reveals Distinct Population Structure that Parallels the Different Computational Roles of Areas M1 and V1. | Seely JS, Kaufman MT, Ryu SI, Shenoy KV, Cunningham JP, Churchland MM | PLoS computational biology | 27814353 | PLoS Comput Biol | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27814353 |
| The Importance of Planning in Motor Learning. | O'Shea DJ, Shenoy KV | Neuron | 27883896 | Neuron | 2016 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/27883896 |
| Trial-by-Trial Motor Cortical Correlates of a Rapidly Adapting Visuomotor Internal Model. | Stavisky SD, Kao JC, Ryu SI, Shenoy KV | The Journal of neuroscience : the official journal of the Society for Neuroscience | 28087767 | J Neurosci | 2017 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/28087767 |
| Laminar differences in decision-related neural activity in dorsal premotor cortex. | Chandrasekaran C, Peixoto D, Newsome WT, Shenoy KV | Nature communications | 28931803 | Nat Commun | 2017 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/28931803 |
| Decoding and perturbing decision states in real time. | Peixoto D, Verhein JR, Kiani R, Kao JC, Nuyujukian P, Chandrasekaran C, Brown J, Fong S, Ryu SI, Shenoy KV, Newsome WT | Nature | 33473215 | Nature | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33473215 |
| Frequency Shifts and Depth Dependence of Premotor Beta Band Activity during Perceptual Decision-Making. | Chandrasekaran C, Bray IE, Shenoy KV | The Journal of neuroscience : the official journal of the Society for Neuroscience | 30606756 | J Neurosci | 2019 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/30606756 |
| Simultaneous motor preparation and execution in a last-moment reach correction task. | Ames KC, Ryu SI, Shenoy KV | Nature communications | 31221968 | Nat Commun | 2019 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/31221968 |
| A low-power band of neuronal spiking activity dominated by local single units improves the performance of brain-machine interfaces. | Nason SR, Vaskov AK, Willsey MS, Welle EJ, An H, Vu PP, Bullard AJ, Nu CS, Kao JC, Shenoy KV, Jang T, Kim HS, Blaauw D, Patil PG, Chestek CA | Nature biomedical engineering | 32719512 | Nat Biomed Eng | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32719512 |
| Optochemical dissection of T-box gene-dependent medial floor plate development. | Payumo AY, Walker WJ, McQuade LE, Yamazoe S, Chen JK | ACS chemical biology | 25781211 | ACS Chem Biol | 2015 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/25781211 |
| In vivo imaging of Hedgehog pathway activation with a nuclear fluorescent reporter. | Mich JK, Payumo AY, Rack PG, Chen JK | PloS one | 25068273 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25068273 |
| Sequential gene silencing using wavelength-selective caged morpholino oligonucleotides. | Yamazoe S, Liu Q, McQuade LE, Deiters A, Chen JK | Angewandte Chemie (International ed. in English) | 25130695 | Angew Chem Int Ed Engl | 2014 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/25130695 |
| Ultrasensitive optical imaging with lanthanide lumiphores. | Cho U, Riordan DP, Ciepla P, Kocherlakota KS, Chen JK, Harbury PB | Nature chemical biology | 29106397 | Nat Chem Biol | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29106397 |
| An inducible long noncoding RNA amplifies DNA damage signaling. | Schmitt AM, Garcia JT, Hung T, Flynn RA, Shen Y, Qu K, Payumo AY, Peres-da-Silva A, Broz DK, Baum R, Guo S, Chen JK, Attardi LD, Chang HY | Nature genetics | 27668660 | Nat Genet | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27668660 |
| Nitroreductase-activatable morpholino oligonucleotides for in vivo gene silencing. | Yamazoe S, McQuade LE, Chen JK | ACS chemical biology | 25069083 | ACS Chem Biol | 2014 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/25069083 |
| Arhgap36-dependent activation of Gli transcription factors. | Rack PG, Ni J, Payumo AY, Nguyen V, Crapster JA, Hovestadt V, Kool M, Jones DT, Mich JK, Firestone AJ, Pfister SM, Cho YJ, Chen JK | Proceedings of the National Academy of Sciences of the United States of America | 25024229 | Proc Natl Acad Sci U S A | 2014 Jul 29 | https://www.ncbi.nlm.nih.gov/pubmed/25024229 |
| Tbx16 regulates hox gene activation in mesodermal progenitor cells. | Payumo AY, McQuade LE, Walker WJ, Yamazoe S, Chen JK | Nature chemical biology | 27376691 | Nat Chem Biol | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27376691 |
| trLRET microscopy: Ultrasensitive imaging of lanthanide luminophores. | Ciepla P, Cho U, Chen JK | Methods in enzymology | 32560800 | Methods Enzymol | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32560800 |
| General method for regulating protein stability with light. | Bonger KM, Rakhit R, Payumo AY, Chen JK, Wandless TJ | ACS chemical biology | 24180414 | ACS Chem Biol | 2014 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/24180414 |
| Functional inhibition of UQCRB suppresses angiogenesis in zebrafish. | Cho YS, Jung HJ, Seok SH, Payumo AY, Chen JK, Kwon HJ | Biochemical and biophysical research communications | 23454382 | Biochem Biophys Res Commun | 2013 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/23454382 |
| The chemistry of next-generation sequencing. | Rodriguez R, Krishnan Y | Nature biotechnology | 37845570 | Nat Biotechnol | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37845570 |
| Detecting organelle-specific activity of potassium channels with a DNA nanodevice. | Anees P, Saminathan A, Rozmus ER, Di A, Malik AB, Delisle BP, Krishnan Y | Nature biotechnology | 37735264 | Nat Biotechnol | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37735264 |
| A mechanism of lysosomal calcium entry. | Zajac M, Mukherjee S, Anees P, Oettinger D, Henn K, Srikumar J, Zou J, Saminathan A, Krishnan Y | Science advances | 38354239 | Sci Adv | 2024 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/38354239 |
| A DNA nanodevice for mapping sodium at single-organelle resolution. | Zou J, Mitra K, Anees P, Oettinger D, Ramirez JR, Veetil AT, Gupta PD, Rao R, Smith JJ, Kratsios P, Krishnan Y | Nature biotechnology | 37735265 | Nat Biotechnol | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37735265 |
| Passive endocytosis in model protocells. | Zhang SJ, Lowe LA, Anees P, Krishnan Y, Fai TG, Szostak JW, Wang A | Proceedings of the National Academy of Sciences of the United States of America | 37276401 | Proc Natl Acad Sci U S A | 2023 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/37276401 |
| Quantitative Chemical Imaging of Organelles. | Tinker J, Anees P, Krishnan Y | Accounts of chemical research | 38916405 | Acc Chem Res | 2024 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/38916405 |
| An SLC12A9-dependent ion transport mechanism maintains lysosomal osmolarity. | Levin-Konigsberg R, Mitra K, Spees K, Nigam A, Liu K, Januel C, Hivare P, Arana SM, Prolo LM, Kundaje A, Leonetti MD, Krishnan Y, Bassik MC | Developmental cell | 39476838 | Dev Cell | 2025 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/39476838 |
| Fit for Purpose Approach To Evaluate Detection of Amino Acid Substitutions in Shotgun Proteomics. | Lundgren TJ, Clark PL, Champion MM | Journal of proteome research | 38478054 | J Proteome Res | 2024 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/38478054 |
| Discovery of an on-pathway protein folding intermediate illuminates the kinetic competition between folding and misfolding. | Luan Q, Clark PL | bioRxiv : the preprint server for biology | 39868219 | bioRxiv | 2024 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/39868219 |
| The Effects of Codon Usage on Protein Structure and Folding. | Moss MJ, Chamness LM, Clark PL | Annual review of biophysics | 38134335 | Annu Rev Biophys | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/38134335 |
| CHARMING: Harmonizing synonymous codon usage to replicate a desired codon usage pattern. | Wright G, Rodriguez A, Li J, Milenkovic T, Emrich SJ, Clark PL | Protein science : a publication of the Protein Society | 34738275 | Protein Sci | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34738275 |
| How hydrophobicity, side chains, and salt affect the dimensions of disordered proteins. | Baxa MC, Lin X, Mukinay CD, Chakravarthy S, Sachleben JR, Antilla S, Hartrampf N, Riback JA, Gagnon IA, Pentelute BL, Clark PL, Sosnick TR | Protein science : a publication of the Protein Society | 38607226 | Protein Sci | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/38607226 |
| Synonymous codon substitutions modulate transcription and translation of a divergent upstream gene by modulating antisense RNA production. | Rodriguez A, Diehl JD, Wright GS, Bonar CD, Lundgren TJ, Moss MJ, Li J, Milenkovic T, Huber PW, Champion MM, Emrich SJ, Clark PL | Proceedings of the National Academy of Sciences of the United States of America | 39190361 | Proc Natl Acad Sci U S A | 2024 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/39190361 |
| A Versatile eIF3d in Translational Control of Stress Adaptation. | Jia L, Qian SB | Molecular cell | 33417853 | Mol Cell | 2021 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/33417853 |
| A heat shock-responsive lncRNA Heat acts as a HSF1-directed transcriptional brake via m(6)A modification. | Ji Q, Zong X, Mao Y, Qian SB | Proceedings of the National Academy of Sciences of the United States of America | 34131081 | Proc Natl Acad Sci U S A | 2021 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/34131081 |
| Making sense of mRNA translational "noise". | Mao Y, Qian SB | Seminars in cell & developmental biology | 36925447 | Semin Cell Dev Biol | 2024 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/36925447 |
| Lysosomal cystine governs ferroptosis sensitivity in cancer via cysteine stress response. | Swanda RV, Ji Q, Wu X, Yan J, Dong L, Mao Y, Uematsu S, Dong Y, Qian SB | Molecular cell | 37647899 | Mol Cell | 2023 Sep 21 | https://www.ncbi.nlm.nih.gov/pubmed/37647899 |
| Bi-directional ribosome scanning controls the stringency of start codon selection. | Gu Y, Mao Y, Jia L, Dong L, Qian SB | Nature communications | 34782646 | Nat Commun | 2021 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/34782646 |
| Dynamic eIF3a O-GlcNAcylation controls translation reinitiation during nutrient stress. | Shu XE, Mao Y, Jia L, Qian SB | Nature chemical biology | 34887587 | Nat Chem Biol | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/34887587 |
| Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues. | Saka SK, Wang Y, Kishi JY, Zhu A, Zeng Y, Xie W, Kirli K, Yapp C, Cicconet M, Beliveau BJ, Lapan SW, Yin S, Lin M, Boyden ES, Kaeser PS, Pihan G, Church GM, Yin P | Nature biotechnology | 31427819 | Nat Biotechnol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31427819 |
| Super-resolution labelling with Action-PAINT. | Liu N, Dai M, Saka SK, Yin P | Nature chemistry | 31527848 | Nat Chem | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31527848 |
| Enhancing Biocompatible Stability of DNA Nanostructures Using Dendritic Oligonucleotides and Brick Motifs. | Kim Y, Yin P | Angewandte Chemie (International ed. in English) | 31595637 | Angew Chem Int Ed Engl | 2020 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/31595637 |
| Sub-3-Å cryo-EM structure of RNA enabled by engineered homomeric self-assembly. | Liu D, Thélot FA, Piccirilli JA, Liao M, Yin P | Nature methods | 35501384 | Nat Methods | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35501384 |
| Thermal-plex: fluidic-free, rapid sequential multiplexed imaging with DNA-encoded thermal channels. | Hong F, Kishi JY, Delgado RN, Jeong J, Saka SK, Su H, Cepko CL, Yin P | Nature methods | 38151595 | Nat Methods | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38151595 |
| Scalable design of orthogonal DNA barcode libraries. | Gowri G, Sheng K, Yin P | Nature computational science | 38849559 | Nat Comput Sci | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38849559 |
| Light-Seq: light-directed in situ barcoding of biomolecules in fixed cells and tissues for spatially indexed sequencing. | Kishi JY, Liu N, West ER, Sheng K, Jordanides JJ, Serrata M, Cepko CL, Saka SK, Yin P | Nature methods | 36216958 | Nat Methods | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36216958 |
| Cryosectioning-enhanced super-resolution microscopy for single-protein imaging across cells and tissues. | Stein J, Ericsson M, Nofal M, Magni L, Aufmkolk S, McMillan RB, Breimann L, Herlihy CP, Lee SD, Willemin A, Wohlmann J, Arguedas-Jimenez L, Yin P, Pombo A, Church GM, Wu CT | bioRxiv : the preprint server for biology | 38370628 | bioRxiv | 2025 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/38370628 |
| The emerging landscape of single-molecule protein sequencing technologies. | Alfaro JA, Bohländer P, Dai M, Filius M, Howard CJ, van Kooten XF, Ohayon S, Pomorski A, Schmid S, Aksimentiev A, Anslyn EV, Bedran G, Cao C, Chinappi M, Coyaud E, Dekker C, Dittmar G, Drachman N, Eelkema R, Goodlett D, Hentz S, Kalathiya U, Kelleher NL, Kelly RT, Kelman Z, Kim SH, Kuster B, Rodriguez-Larrea D, Lindsay S, Maglia G, Marcotte EM, Marino JP, Masselon C, Mayer M, Samaras P, Sarthak K, Sepiashvili L, Stein D, Wanunu M, Wilhelm M, Yin P, Meller A, Joo C | Nature methods | 34099939 | Nat Methods | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34099939 |
| Signal amplification by cyclic extension enables high-sensitivity single-cell mass cytometry. | Lun XK, Sheng K, Yu X, Lam CY, Gowri G, Serrata M, Zhai Y, Su H, Luan J, Kim Y, Ingber DE, Jackson HW, Yaffe MB, Yin P | Nature biotechnology | 39075149 | Nat Biotechnol | 2025 May | https://www.ncbi.nlm.nih.gov/pubmed/39075149 |
| Functional analysis of rare genetic variants in complement factor I in advanced age-related macular degeneration. | Java A, Pozzi N, Schroeder MC, Hu Z, Huan T, Seddon JM, Atkinson J | Human molecular genetics | 35531992 | Hum Mol Genet | 2022 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/35531992 |
| Concurrent inhibition of CDK2 adds to the anti-tumour activity of CDK4/6 inhibition in GIST. | Schaefer IM, Hemming ML, Lundberg MZ, Serrata MP, Goldaracena I, Liu N, Yin P, Paulo JA, Gygi SP, George S, Morgan JA, Bertagnolli MM, Sicinska ET, Chu C, Zheng S, Mariño-Enríquez A, Hornick JL, Raut CP, Ou WB, Demetri GD, Saka SK, Fletcher JA | British journal of cancer | 36175617 | Br J Cancer | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36175617 |
| Single-strand RPA for rapid and sensitive detection of SARS-CoV-2 RNA. | Kim Y, Yaseen AB, Kishi JY, Hong F, Saka SK, Sheng K, Gopalkrishnan N, Schaus TE, Yin P | medRxiv : the preprint server for health sciences | 32839783 | medRxiv | 2020 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/32839783 |
| De novo-designed translation-repressing riboregulators for multi-input cellular logic. | Kim J, Zhou Y, Carlson PD, Teichmann M, Chaudhary S, Simmel FC, Silver PA, Collins JJ, Lucks JB, Yin P, Green AA | Nature chemical biology | 31686032 | Nat Chem Biol | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31686032 |
| Molecular robotic agents that survey molecular landscapes for information retrieval. | Woo S, Saka SK, Xuan F, Yin P | Nature communications | 38632239 | Nat Commun | 2024 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/38632239 |
| Recombination between phages and CRISPR-cas loci facilitates horizontal gene transfer in staphylococci. | Varble A, Meaden S, Barrangou R, Westra ER, Marraffini LA | Nature microbiology | 30886355 | Nat Microbiol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30886355 |
| Non-specific degradation of transcripts promotes plasmid clearance during type III-A CRISPR-Cas immunity. | Rostøl JT, Marraffini LA | Nature microbiology | 30692669 | Nat Microbiol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30692669 |
| Type III-A CRISPR-Cas Csm Complexes: Assembly, Periodic RNA Cleavage, DNase Activity Regulation, and Autoimmunity. | Jia N, Mo CY, Wang C, Eng ET, Marraffini LA, Patel DJ | Molecular cell | 30503773 | Mol Cell | 2019 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/30503773 |
| Type III-A CRISPR immunity promotes mutagenesis of staphylococci. | Mo CY, Mathai J, Rostøl JT, Varble A, Banh DV, Marraffini LA | Nature | 33828299 | Nature | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33828299 |
| Co-evolution within structured bacterial communities results in multiple expansion of CRISPR loci and enhanced immunity. | Pyenson NC, Marraffini LA | eLife | 32223887 | Elife | 2020 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/32223887 |
| Spacer Acquisition Rates Determine the Immunological Diversity of the Type II CRISPR-Cas Immune Response. | Heler R, Wright AV, Vucelja M, Doudna JA, Marraffini LA | Cell host & microbe | 30709780 | Cell Host Microbe | 2019 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/30709780 |
| Cleavage of viral DNA by restriction endonucleases stimulates the type II CRISPR-Cas immune response. | Maguin P, Varble A, Modell JW, Marraffini LA | Molecular cell | 35134339 | Mol Cell | 2022 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/35134339 |
| Prophage integration into CRISPR loci enables evasion of antiviral immunity in Streptococcus pyogenes. | Varble A, Campisi E, Euler CW, Maguin P, Kozlova A, Fyodorova J, Rostøl JT, Fischetti VA, Marraffini LA | Nature microbiology | 34819640 | Nat Microbiol | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34819640 |
| Dynamics of Cas10 Govern Discrimination between Self and Non-self in Type III CRISPR-Cas Immunity. | Wang L, Mo CY, Wasserman MR, Rostøl JT, Marraffini LA, Liu S | Molecular cell | 30503774 | Mol Cell | 2019 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/30503774 |
| Incomplete prophage tolerance by type III-A CRISPR-Cas systems reduces the fitness of lysogenic hosts. | Goldberg GW, McMillan EA, Varble A, Modell JW, Samai P, Jiang W, Marraffini LA | Nature communications | 29302058 | Nat Commun | 2018 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/29302058 |
| Cas13-induced cellular dormancy prevents the rise of CRISPR-resistant bacteriophage. | Meeske AJ, Nakandakari-Higa S, Marraffini LA | Nature | 31142834 | Nature | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31142834 |
| Viral recombination systems limit CRISPR-Cas targeting through the generation of escape mutations. | Hossain AA, McGinn J, Meeske AJ, Modell JW, Marraffini LA | Cell host & microbe | 34582782 | Cell Host Microbe | 2021 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/34582782 |
| (Ph)ighting Phages: How Bacteria Resist Their Parasites. | Rostøl JT, Marraffini L | Cell host & microbe | 30763533 | Cell Host Microbe | 2019 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/30763533 |
| A phage-encoded anti-CRISPR enables complete evasion of type VI-A CRISPR-Cas immunity. | Meeske AJ, Jia N, Cassel AK, Kozlova A, Liao J, Wiedmann M, Patel DJ, Marraffini LA | Science (New York, N.Y.) | 32467331 | Science | 2020 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/32467331 |
| Activation and self-inactivation mechanisms of the cyclic oligoadenylate-dependent CRISPR ribonuclease Csm6. | Garcia-Doval C, Schwede F, Berk C, Rostøl JT, Niewoehner O, Tejero O, Hall J, Marraffini LA, Jinek M | Nature communications | 32221291 | Nat Commun | 2020 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/32221291 |
| The Cas10 nuclease activity relieves host dormancy to facilitate spacer acquisition and retention during type III-A CRISPR immunity. | Aviram N, Shilton AK, Lyn NG, Reis BS, Brivanlou A, Marraffini LA | bioRxiv : the preprint server for biology | 38405743 | bioRxiv | 2024 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/38405743 |
| Molecular mechanisms of CRISPR-Cas spacer acquisition. | McGinn J, Marraffini LA | Nature reviews. Microbiology | 30171202 | Nat Rev Microbiol | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30171202 |
| The Card1 nuclease provides defence during type III CRISPR immunity. | Rostøl JT, Xie W, Kuryavyi V, Maguin P, Kao K, Froom R, Patel DJ, Marraffini LA | Nature | 33461211 | Nature | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33461211 |
| Cas9 Cleavage of Viral Genomes Primes the Acquisition of New Immunological Memories. | Nussenzweig PM, McGinn J, Marraffini LA | Cell host & microbe | 31585845 | Cell Host Microbe | 2019 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/31585845 |
| Different modes of spacer acquisition by the Staphylococcus epidermidis type III-A CRISPR-Cas system. | Aviram N, Thornal AN, Zeevi D, Marraffini LA | Nucleic acids research | 35048966 | Nucleic Acids Res | 2022 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/35048966 |
| RNA Guide Complementarity Prevents Self-Targeting in Type VI CRISPR Systems. | Meeske AJ, Marraffini LA | Molecular cell | 30122537 | Mol Cell | 2018 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/30122537 |
| Three New Cs for CRISPR: Collateral, Communicate, Cooperate. | Varble A, Marraffini LA | Trends in genetics : TIG | 31036344 | Trends Genet | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31036344 |
| If You'd Like to Stop a Type III CRISPR Ribonuclease, Then You Should Put a Ring (Nuclease) on It. | Mo CY, Marraffini LA | Molecular cell | 30444997 | Mol Cell | 2018 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/30444997 |
| Rarely acquired type II-A CRISPR-Cas spacers mediate anti-viral immunity through the targeting of a non-canonical PAM sequence. | Kenney CT, Marraffini LA | Nucleic acids research | 37293964 | Nucleic Acids Res | 2023 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/37293964 |
| Widespread intronic polyadenylation diversifies immune cell transcriptomes. | Singh I, Lee SH, Sperling AS, Samur MK, Tai YT, Fulciniti M, Munshi NC, Mayr C, Leslie CS | Nature communications | 29712909 | Nat Commun | 2018 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/29712909 |
| Endogenous p53 expression in human and mouse is not regulated by its 3'UTR. | Mitschka S, Mayr C | eLife | 33955355 | Elife | 2021 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/33955355 |
| Gain of Additional BIRC3 Protein Functions through 3'-UTR-Mediated Protein Complex Formation. | Lee SH, Mayr C | Molecular cell | 30948266 | Mol Cell | 2019 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/30948266 |
| Quantifying 3'UTR length from scRNA-seq data reveals changes independent of gene expression. | Fansler MM, Mitschka S, Mayr C | Nature communications | 38744866 | Nat Commun | 2024 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/38744866 |
| Context-specific regulation and function of mRNA alternative polyadenylation. | Mitschka S, Mayr C | Nature reviews. Molecular cell biology | 35798852 | Nat Rev Mol Cell Biol | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35798852 |
| In vivo reconstitution finds multivalent RNA-RNA interactions as drivers of mesh-like condensates. | Ma W, Zhen G, Xie W, Mayr C | eLife | 33650968 | Elife | 2021 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/33650968 |
| Widespread intronic polyadenylation inactivates tumour suppressor genes in leukaemia. | Lee SH, Singh I, Tisdale S, Abdel-Wahab O, Leslie CS, Mayr C | Nature | 30150773 | Nature | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30150773 |
| A Membraneless Organelle Associated with the Endoplasmic Reticulum Enables 3'UTR-Mediated Protein-Protein Interactions. | Ma W, Mayr C | Cell | 30449617 | Cell | 2018 Nov 29 | https://www.ncbi.nlm.nih.gov/pubmed/30449617 |
| What Are 3' UTRs Doing? | Mayr C | Cold Spring Harbor perspectives in biology | 30181377 | Cold Spring Harb Perspect Biol | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/30181377 |
| Regulation by 3'-Untranslated Regions. | Mayr C | Annual review of genetics | 28853924 | Annu Rev Genet | 2017 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/28853924 |
| 3' UTRs Regulate Protein Functions by Providing a Nurturing Niche during Protein Synthesis. | Mayr C | Cold Spring Harbor symposia on quantitative biology | 31900325 | Cold Spring Harb Symp Quant Biol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31900325 |
| Generation of 3'UTR knockout cell lines by CRISPR/Cas9-mediated genome editing. | Mitschka S, Fansler MM, Mayr C | Methods in enzymology | 34183132 | Methods Enzymol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34183132 |
| The FXR1 network acts as signaling scaffold for actomyosin remodeling. | Chen X, Fansler MM, Janjoš U, Ule J, Mayr C | bioRxiv : the preprint server for biology | 37961296 | bioRxiv | 2024 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/37961296 |
| The FXR1 network acts as a signaling scaffold for actomyosin remodeling. | Chen X, Fansler MM, Janjoš U, Ule J, Mayr C | Cell | 39106863 | Cell | 2024 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/39106863 |
| Enhancers regulate 3' end processing activity to control expression of alternative 3'UTR isoforms. | Kwon B, Fansler MM, Patel ND, Lee J, Ma W, Mayr C | Nature communications | 35581194 | Nat Commun | 2022 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/35581194 |
| A working model for condensate RNA-binding proteins as matchmakers for protein complex assembly. | Chen X, Mayr C | RNA (New York, N.Y.) | 34706978 | RNA | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34706978 |
| Subcytoplasmic location of translation controls protein output. | Horste EL, Fansler MM, Cai T, Chen X, Mitschka S, Zhen G, Lee FCY, Ule J, Mayr C | Molecular cell | 38134885 | Mol Cell | 2023 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/38134885 |
| mRNA interactions with disordered regions control protein activity. | Luo Y, Pratihar S, Horste EH, Mitschka S, Mey ASJS, Al-Hashimi HM, Mayr C | bioRxiv : the preprint server for biology | 36824771 | bioRxiv | 2023 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/36824771 |
| Mitochondrial hyperactivity as a potential therapeutic target in Parkinson's disease. | Mor DE, Murphy CT | Translational medicine of aging | 33178902 | Transl Med Aging | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/33178902 |
| Transcriptome analysis of adult Caenorhabditis elegans cells reveals tissue-specific gene and isoform expression. | Kaletsky R, Yao V, Williams A, Runnels AM, Tadych A, Zhou S, Troyanskaya OG, Murphy CT | PLoS genetics | 30096138 | PLoS Genet | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30096138 |
| Protocol for transgenerational learned pathogen avoidance behavior assays in Caenorhabditis elegans. | Moore RS, Kaletsky R, Murphy CT | STAR protocols | 33748786 | STAR Protoc | 2021 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/33748786 |
| High-throughput behavioral screen in C. elegans reveals Parkinson's disease drug candidates. | Sohrabi S, Mor DE, Kaletsky R, Keyes W, Murphy CT | Communications biology | 33589689 | Commun Biol | 2021 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/33589689 |
| GAIT-GM integrative cross-omics analyses reveal cholinergic defects in a C. elegans model of Parkinson's disease. | McIntyre LM, Huertas F, Morse AM, Kaletsky R, Murphy CT, Kalia V, Miller GW, Moskalenko O, Conesa A, Mor DE | Scientific reports | 35228596 | Sci Rep | 2022 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/35228596 |
| A natural bacterial pathogen of C. elegans uses a small RNA to induce transgenerational inheritance of learned avoidance. | Sengupta T, St Ange J, Kaletsky R, Moore RS, Seto RJ, Marogi J, Myhrvold C, Gitai Z, Murphy CT | PLoS genetics | 38547071 | PLoS Genet | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38547071 |
| Molecular requirements for C. elegans transgenerational epigenetic inheritance of pathogen avoidance. | Kaletsky R, Moore RS, Sengupta T, Seto R, Ceballos-Llera B, Murphy CT | eLife | 40372780 | Elife | 2025 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/40372780 |
| The role of the Cer1 transposon in horizontal transfer of transgenerational memory. | Moore RS, Kaletsky R, Lesnik C, Cota V, Blackman E, Parsons LR, Gitai Z, Murphy CT | Cell | 34363756 | Cell | 2021 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/34363756 |
| Caenorhabditis elegans sperm carry a histone-based epigenetic memory of both spermatogenesis and oogenesis. | Tabuchi TM, Rechtsteiner A, Jeffers TE, Egelhofer TA, Murphy CT, Strome S | Nature communications | 30333496 | Nat Commun | 2018 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/30333496 |
| An integrative tissue-network approach to identify and test human disease genes. | Yao V, Kaletsky R, Keyes W, Mor DE, Wong AK, Sohrabi S, Murphy CT, Troyanskaya OG | Nature biotechnology | 30346941 | Nat Biotechnol | 2018 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/30346941 |
| Pseudomonas fluorescens 15 small RNA Pfs1 mediates transgenerational epigenetic inheritance of pathogen avoidance in C. elegans through the Ephrin receptor VAB-1. | Seto R, Brown R, Kaletsky R, Parsons LR, Moore RS, Murphy CT | bioRxiv : the preprint server for biology | 38826453 | bioRxiv | 2024 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/38826453 |
| Biological sex matters in brain aging. | Dubal DB, Murphy CT, Suh Y, Benayoun BA | Neuron | 39788086 | Neuron | 2025 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/39788086 |
| Regulation of reproduction and longevity by nutrient-sensing pathways. | Templeman NM, Murphy CT | The Journal of cell biology | 29074705 | J Cell Biol | 2018 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/29074705 |
| Piwi/PRG-1 Argonaute and TGF-β Mediate Transgenerational Learned Pathogenic Avoidance. | Moore RS, Kaletsky R, Murphy CT | Cell | 31178117 | Cell | 2019 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/31178117 |
| Metformin rescues Parkinson's disease phenotypes caused by hyperactive mitochondria. | Mor DE, Sohrabi S, Kaletsky R, Keyes W, Tartici A, Kalia V, Miller GW, Murphy CT | Proceedings of the National Academy of Sciences of the United States of America | 33024014 | Proc Natl Acad Sci U S A | 2020 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/33024014 |
| piRNAs regulate a Hedgehog germline-to-soma pro-aging signal. | Shi C, Murphy CT | Nature aging | 37118518 | Nat Aging | 2023 Jan | https://www.ncbi.nlm.nih.gov/pubmed/37118518 |
| Mating and male pheromone kill Caenorhabditis males through distinct mechanisms. | Shi C, Runnels AM, Murphy CT | eLife | 28290982 | Elife | 2017 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/28290982 |
| The C. elegans adult neuronal IIS/FOXO transcriptome reveals adult phenotype regulators. | Kaletsky R, Lakhina V, Arey R, Williams A, Landis J, Ashraf J, Murphy CT | Nature | 26675724 | Nature | 2016 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/26675724 |
| Cell-Specific Transcriptional Profiling of Ciliated Sensory Neurons Reveals Regulators of Behavior and Extracellular Vesicle Biogenesis. | Wang J, Kaletsky R, Silva M, Williams A, Haas LA, Androwski RJ, Landis JN, Patrick C, Rashid A, Santiago-Martinez D, Gravato-Nobre M, Hodgkin J, Hall DH, Murphy CT, Barr MM | Current biology : CB | 26687621 | Curr Biol | 2015 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/26687621 |
| C. elegans interprets bacterial non-coding RNAs to learn pathogenic avoidance. | Kaletsky R, Moore RS, Vrla GD, Parsons LR, Gitai Z, Murphy CT | Nature | 32908307 | Nature | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32908307 |
| Transcriptional Profiling of C. elegans Adult Cells and Tissues with Age. | Kaletsky R, Murphy CT | Methods in molecular biology (Clifton, N.J.) | 32410035 | Methods Mol Biol | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32410035 |
| Novel elasticity measurements reveal C. elegans cuticle stiffens with age and in a long-lived mutant. | Rahimi M, Sohrabi S, Murphy CT | Biophysical journal | 35065051 | Biophys J | 2022 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/35065051 |
| The usual suspects, dopamine and alpha-synuclein, conspire to cause neurodegeneration. | Mor DE, Daniels MJ, Ischiropoulos H | Movement disorders : official journal of the Movement Disorder Society | 30633814 | Mov Disord | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30633814 |
| A natural bacterial pathogen of C. elegans uses a small RNA to induce transgenerational inheritance of learned avoidance. | Sengupta T, St Ange J, Moore R, Kaletsky R, Marogi J, Myhrvold C, Gitai Z, Murphy CT | bioRxiv : the preprint server for biology | 37503135 | bioRxiv | 2023 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/37503135 |
| Systematic Comparison of Vesicular Targeting Signals Leads to the Development of Genetically Encoded Vesicular Fluorescent Zn(2+) and pH Sensors. | Pratt EPS, Anson KJ, Tapper JK, Simpson DM, Palmer AE | ACS sensors | 33305939 | ACS Sens | 2020 Dec 24 | https://www.ncbi.nlm.nih.gov/pubmed/33305939 |
| Techniques for measuring cellular zinc. | Carpenter MC, Lo MN, Palmer AE | Archives of biochemistry and biophysics | 27580940 | Arch Biochem Biophys | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/27580940 |
| Native and engineered sensors for Ca(2+) and Zn(2+): lessons from calmodulin and MTF1. | Carpenter MC, Palmer AE | Essays in biochemistry | 28487400 | Essays Biochem | 2017 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/28487400 |
| A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells. | Braselmann E, Wierzba AJ, Polaski JT, Chromiński M, Holmes ZE, Hung ST, Batan D, Wheeler JR, Parker R, Jimenez R, Gryko D, Batey RT, Palmer AE | Nature chemical biology | 30061719 | Nat Chem Biol | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30061719 |
| Zinc transporters belonging to the Cation Diffusion Facilitator (CDF) family have complementary roles in transporting zinc out of the cytosol. | Choi S, Hu YM, Corkins ME, Palmer AE, Bird AJ | PLoS genetics | 29529046 | PLoS Genet | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29529046 |
| Characterization of Global Gene Expression, Regulation of Metal Ions, and Infection Outcomes in Immune-Competent 129S6 Mouse Macrophages. | Janiszewski LN, Minson M, Allen MA, Dowell RD, Palmer AE | Infection and immunity | 34370511 | Infect Immun | 2021 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/34370511 |
| Directed Evolution of a Bright Variant of mCherry: Suppression of Nonradiative Decay by Fluorescence Lifetime Selections. | Mukherjee S, Manna P, Hung ST, Vietmeyer F, Friis P, Palmer AE, Jimenez R | The journal of physical chemistry. B | 35709514 | J Phys Chem B | 2022 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/35709514 |
| Remodeling of Zn(2+) homeostasis upon differentiation of mammary epithelial cells. | Han Y, Sanford L, Simpson DM, Dowell RD, Palmer AE | Metallomics : integrated biometal science | 31950952 | Metallomics | 2020 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/31950952 |
| The Growing and Glowing Toolbox of Fluorescent and Photoactive Proteins. | Rodriguez EA, Campbell RE, Lin JY, Lin MZ, Miyawaki A, Palmer AE, Shu X, Zhang J, Tsien RY | Trends in biochemical sciences | 27814948 | Trends Biochem Sci | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27814948 |
| A Critical and Comparative Review of Fluorescent Tools for Live-Cell Imaging. | Specht EA, Braselmann E, Palmer AE | Annual review of physiology | 27860833 | Annu Rev Physiol | 2017 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/27860833 |
| Tools and techniques for illuminating the cell biology of zinc. | Pratt EPS, Damon LJ, Anson KJ, Palmer AE | Biochimica et biophysica acta. Molecular cell research | 32980354 | Biochim Biophys Acta Mol Cell Res | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/32980354 |
| Dissociated Hippocampal Neurons Exhibit Distinct Zn(2+) Dynamics in a Stimulation-Method-Dependent Manner. | Sanford L, Palmer AE | ACS chemical neuroscience | 32013397 | ACS Chem Neurosci | 2020 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/32013397 |
| Droplet Microfluidic Flow Cytometer For Sorting On Transient Cellular Responses Of Genetically-Encoded Sensors. | Fiedler BL, Van Buskirk S, Carter KP, Qin Y, Carpenter MC, Palmer AE, Jimenez R | Analytical chemistry | 27959493 | Anal Chem | 2017 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/27959493 |
| Directed evolution of excited state lifetime and brightness in FusionRed using a microfluidic sorter. | Manna P, Hung ST, Mukherjee S, Friis P, Simpson DM, Lo MN, Palmer AE, Jimenez R | Integrative biology : quantitative biosciences from nano to macro | 30094420 | Integr Biol (Camb) | 2018 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/30094420 |
| Superiority of SpiroZin2 Versus FluoZin-3 for monitoring vesicular Zn(2+) allows tracking of lysosomal Zn(2+) pools. | Han Y, Goldberg JM, Lippard SJ, Palmer AE | Scientific reports | 30302024 | Sci Rep | 2018 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/30302024 |
| Zn(2+) influx activates ERK and Akt signaling pathways. | Anson KJ, Corbet GA, Palmer AE | Proceedings of the National Academy of Sciences of the United States of America | 33712543 | Proc Natl Acad Sci U S A | 2021 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/33712543 |
| Single cell analysis reveals multiple requirements for zinc in the mammalian cell cycle. | Lo MN, Damon LJ, Wei Tay J, Jia S, Palmer AE | eLife | 32014109 | Elife | 2020 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/32014109 |
| Engineering of a Brighter Variant of the FusionRed Fluorescent Protein Using Lifetime Flow Cytometry and Structure-Guided Mutations. | Mukherjee S, Hung ST, Douglas N, Manna P, Thomas C, Ekrem A, Palmer AE, Jimenez R | Biochemistry | 32914619 | Biochemistry | 2020 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/32914619 |
| A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells. | Braselmann E, Palmer AE | Methods in enzymology | 32713529 | Methods Enzymol | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32713529 |
| Illuminating RNA Biology: Tools for Imaging RNA in Live Mammalian Cells. | Braselmann E, Rathbun C, Richards EM, Palmer AE | Cell chemical biology | 32640188 | Cell Chem Biol | 2020 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/32640188 |
| Discovery of a ZIP7 inhibitor from a Notch pathway screen. | Nolin E, Gans S, Llamas L, Bandyopadhyay S, Brittain SM, Bernasconi-Elias P, Carter KP, Loureiro JJ, Thomas JR, Schirle M, Yang Y, Guo N, Roma G, Schuierer S, Beibel M, Lindeman A, Sigoillot F, Chen A, Xie KX, Ho S, Reece-Hoyes J, Weihofen WA, Tyskiewicz K, Hoepfner D, McDonald RI, Guthrie N, Dogra A, Guo H, Shao J, Ding J, Canham SM, Boynton G, George EL, Kang ZB, Antczak C, Porter JA, Wallace O, Tallarico JA, Palmer AE, Jenkins JL, Jain RK, Bushell SM, Fryer CJ | Nature chemical biology | 30643281 | Nat Chem Biol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30643281 |
| Critical Comparison of FRET-Sensor Functionality in the Cytosol and Endoplasmic Reticulum and Implications for Quantification of Ions. | Carter KP, Carpenter MC, Fiedler B, Jimenez R, Palmer AE | Analytical chemistry | 28758723 | Anal Chem | 2017 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/28758723 |
| Erratum: Directed evolution of excited state lifetime and brightness in FusionRed using a microfluidic sorter. | Manna P, Hung ST, Mukherjee S, Friis P, Simpson DM, Lo M, Palmer AE, Jimenez R | Integrative biology : quantitative biosciences from nano to macro | 31788687 | Integr Biol (Camb) | 2019 Dec 31 | https://www.ncbi.nlm.nih.gov/pubmed/31788687 |
| Intracellular Zn(2+) transients modulate global gene expression in dissociated rat hippocampal neurons. | Sanford L, Carpenter MC, Palmer AE | Scientific reports | 31253848 | Sci Rep | 2019 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/31253848 |
| Intramolecular Fluorescent Protein Association in a Class of Zinc FRET Sensors Leads to Increased Dynamic Range. | Slocum JD, Palmer AE, Jimenez R | The journal of physical chemistry. B | 30942588 | J Phys Chem B | 2019 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/30942588 |
| Human cells experience a Zn(2+) pulse in early G1. | Rakshit A, Holtzen SE, Lo MN, Conway KA, Palmer AE | Cell reports | 37330912 | Cell Rep | 2023 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/37330912 |
| Single molecule microscopy to profile the effect of zinc status on transcription factor dynamics. | Damon LJ, Aaron J, Palmer AE | Scientific reports | 36273101 | Sci Rep | 2022 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/36273101 |
| Protocol for measuring cell cycle Zn(2+) dynamics using a FRET-based biosensor. | Holtzen SE, Rakshit A, Palmer AE | STAR protocols | 38861382 | STAR Protoc | 2024 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/38861382 |
| Nucleoside reverse transcriptase inhibitors possess intrinsic anti-inflammatory activity. | Fowler BJ, Gelfand BD, Kim Y, Kerur N, Tarallo V, Hirano Y, Amarnath S, Fowler DH, Radwan M, Young MT, Pittman K, Kubes P, Agarwal HK, Parang K, Hinton DR, Bastos-Carvalho A, Li S, Yasuma T, Mizutani T, Yasuma R, Wright C, Ambati J | Science (New York, N.Y.) | 25414314 | Science | 2014 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/25414314 |
| Cytoplasmic synthesis of endogenous Alu complementary DNA via reverse transcription and implications in age-related macular degeneration. | Fukuda S, Varshney A, Fowler BJ, Wang SB, Narendran S, Ambati K, Yasuma T, Magagnoli J, Leung H, Hirahara S, Nagasaka Y, Yasuma R, Apicella I, Pereira F, Makin RD, Magner E, Liu X, Sun J, Wang M, Baker K, Marion KM, Huang X, Baghdasaryan E, Ambati M, Ambati VL, Pandey A, Pandya L, Cummings T, Banerjee D, Huang P, Yerramothu P, Tolstonog GV, Held U, Erwin JA, Paquola ACM, Herdy JR, Ogura Y, Terasaki H, Oshika T, Darwish S, Singh RK, Mozaffari S, Bhattarai D, Kim KB, Hardin JW, Bennett CL, Hinton DR, Hanson TE, Röver C, Parang K, Kerur N, Liu J, Werner BC, Sutton SS, Sadda SR, Schumann GG, Gelfand BD, Gage FH, Ambati J | Proceedings of the National Academy of Sciences of the United States of America | 33526699 | Proc Natl Acad Sci U S A | 2021 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/33526699 |
| A non-canonical, interferon-independent signaling activity of cGAMP triggers DNA damage response signaling. | Banerjee D, Langberg K, Abbas S, Odermatt E, Yerramothu P, Volaric M, Reidenbach MA, Krentz KJ, Rubinstein CD, Brautigan DL, Abbas T, Gelfand BD, Ambati J, Kerur N | Nature communications | 34707113 | Nat Commun | 2021 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/34707113 |
| RF/6A Chorioretinal Cells Do Not Display Key Endothelial Phenotypes. | Makin RD, Apicella I, Nagasaka Y, Kaneko H, Turner SD, Kerur N, Ambati J, Gelfand BD | Investigative ophthalmology & visual science | 30508043 | Invest Ophthalmol Vis Sci | 2018 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/30508043 |
| cGAS drives noncanonical-inflammasome activation in age-related macular degeneration. | Kerur N, Fukuda S, Banerjee D, Kim Y, Fu D, Apicella I, Varshney A, Yasuma R, Fowler BJ, Baghdasaryan E, Marion KM, Huang X, Yasuma T, Hirano Y, Serbulea V, Ambati M, Ambati VL, Kajiwara Y, Ambati K, Hirahara S, Bastos-Carvalho A, Ogura Y, Terasaki H, Oshika T, Kim KB, Hinton DR, Leitinger N, Cambier JC, Buxbaum JD, Kenney MC, Jazwinski SM, Nagai H, Hara I, West AP, Fitzgerald KA, Sadda SR, Gelfand BD, Ambati J | Nature medicine | 29176737 | Nat Med | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29176737 |
| Human IgG1 antibodies suppress angiogenesis in a target-independent manner. | Bogdanovich S, Kim Y, Mizutani T, Yasuma R, Tudisco L, Cicatiello V, Bastos-Carvalho A, Kerur N, Hirano Y, Baffi JZ, Tarallo V, Li S, Yasuma T, Arpitha P, Fowler BJ, Wright CB, Apicella I, Greco A, Brunetti A, Ruvo M, Sandomenico A, Nozaki M, Ijima R, Kaneko H, Ogura Y, Terasaki H, Ambati BK, Leusen JH, Langdon WY, Clark MR, Armour KL, Bruhns P, Verbeek JS, Gelfand BD, De Falco S, Ambati J | Signal transduction and targeted therapy | 26918197 | Signal Transduct Target Ther | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26918197 |
| Intravenous immune globulin suppresses angiogenesis in mice and humans. | Yasuma R, Cicatiello V, Mizutani T, Tudisco L, Kim Y, Tarallo V, Bogdanovich S, Hirano Y, Kerur N, Li S, Yasuma T, Fowler BJ, Wright CB, Apicella I, Greco A, Brunetti A, Ambati BK, Helmers SB, Lundberg IE, Viklicky O, Leusen JH, Verbeek JS, Gelfand BD, Bastos-Carvalho A, De Falco S, Ambati J | Signal transduction and targeted therapy | 26925256 | Signal Transduct Target Ther | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26925256 |
| L1 drives IFN in senescent cells and promotes age-associated inflammation. | De Cecco M, Ito T, Petrashen AP, Elias AE, Skvir NJ, Criscione SW, Caligiana A, Brocculi G, Adney EM, Boeke JD, Le O, Beauséjour C, Ambati J, Ambati K, Simon M, Seluanov A, Gorbunova V, Slagboom PE, Helfand SL, Neretti N, Sedivy JM | Nature | 30728521 | Nature | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30728521 |
| Nucleoside Reverse Transcriptase Inhibitors Suppress Laser-Induced Choroidal Neovascularization in Mice. | Mizutani T, Fowler BJ, Kim Y, Yasuma R, Krueger LA, Gelfand BD, Ambati J | Investigative ophthalmology & visual science | 26529046 | Invest Ophthalmol Vis Sci | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26529046 |
| Voluntary Exercise Suppresses Choroidal Neovascularization in Mice. | Makin RD, Argyle D, Hirahara S, Nagasaka Y, Zhang M, Yan Z, Kerur N, Ambati J, Gelfand BD | Investigative ophthalmology & visual science | 32460310 | Invest Ophthalmol Vis Sci | 2020 May 11 | https://www.ncbi.nlm.nih.gov/pubmed/32460310 |
| Zidovudine ameliorates pathology in the mouse model of Duchenne muscular dystrophy via P2RX7 purinoceptor antagonism. | Al-Khalidi R, Panicucci C, Cox P, Chira N, Róg J, Young CNJ, McGeehan RE, Ambati K, Ambati J, Zabłocki K, Gazzerro E, Arkle S, Bruno C, Górecki DC | Acta neuropathologica communications | 29642926 | Acta Neuropathol Commun | 2018 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/29642926 |
| Dry Age-Related Macular Degeneration Pharmacology. | Wright CB, Ambati J | Handbook of experimental pharmacology | 27900609 | Handb Exp Pharmacol | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/27900609 |
| Powerful anti-tumor and anti-angiogenic activity of a new anti-vascular endothelial growth factor receptor 1 peptide in colorectal cancer models. | Cicatiello V, Apicella I, Tudisco L, Tarallo V, Formisano L, Sandomenico A, Kim Y, Bastos-Carvalho A, Orlandi A, Ambati J, Ruvo M, Bianco R, De Falco S | Oncotarget | 25868854 | Oncotarget | 2015 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/25868854 |
| DDX17 is an essential mediator of sterile NLRC4 inflammasome activation by retrotransposon RNAs. | Wang SB, Narendran S, Hirahara S, Varshney A, Pereira F, Apicella I, Ambati M, Ambati VL, Yerramothu P, Ambati K, Nagasaka Y, Argyle D, Huang P, Baker KL, Marion KM, Gupta K, Liu B, Hinton DR, Canna SW, Sallam T, Sadda SR, Kerur N, Gelfand BD, Ambati J | Science immunology | 34860583 | Sci Immunol | 2021 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/34860583 |
| A Revised Hemodynamic Theory of Age-Related Macular Degeneration. | Gelfand BD, Ambati J | Trends in molecular medicine | 27423265 | Trends Mol Med | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27423265 |
| DICER1/Alu RNA dysmetabolism induces Caspase-8-mediated cell death in age-related macular degeneration. | Kim Y, Tarallo V, Kerur N, Yasuma T, Gelfand BD, Bastos-Carvalho A, Hirano Y, Yasuma R, Mizutani T, Fowler BJ, Li S, Kaneko H, Bogdanovich S, Ambati BK, Hinton DR, Hauswirth WW, Hakem R, Wright C, Ambati J | Proceedings of the National Academy of Sciences of the United States of America | 25349431 | Proc Natl Acad Sci U S A | 2014 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/25349431 |
| Iron Toxicity in the Retina Requires Alu RNA and the NLRP3 Inflammasome. | Gelfand BD, Wright CB, Kim Y, Yasuma T, Yasuma R, Li S, Fowler BJ, Bastos-Carvalho A, Kerur N, Uittenbogaard A, Han YS, Lou D, Kleinman ME, McDonald WH, Núñez G, Georgel P, Dunaief JL, Ambati J | Cell reports | 26074074 | Cell Rep | 2015 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/26074074 |
| IL-18 is not therapeutic for neovascular age-related macular degeneration. | Hirano Y, Yasuma T, Mizutani T, Fowler BJ, Tarallo V, Yasuma R, Kim Y, Bastos-Carvalho A, Kerur N, Gelfand BD, Bogdanovich S, He S, Zhang X, Nozaki M, Ijima R, Kaneko H, Ogura Y, Terasaki H, Nagai H, Haro I, Núñez G, Ambati BK, Hinton DR, Ambati J | Nature medicine | 25473914 | Nat Med | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25473914 |
| Chronic Dicer1 deficiency promotes atrophic and neovascular outer retinal pathologies in mice. | Wright CB, Uehara H, Kim Y, Yasuma T, Yasuma R, Hirahara S, Makin RD, Apicella I, Pereira F, Nagasaka Y, Narendran S, Fukuda S, Albuquerque R, Fowler BJ, Bastos-Carvalho A, Georgel P, Hatada I, Chang B, Kerur N, Ambati BK, Ambati J, Gelfand BD | Proceedings of the National Academy of Sciences of the United States of America | 31964819 | Proc Natl Acad Sci U S A | 2020 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/31964819 |
| Optical control of cell signaling by single-chain photoswitchable kinases. | Zhou XX, Fan LZ, Li P, Shen K, Lin MZ | Science (New York, N.Y.) | 28232577 | Science | 2017 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/28232577 |
| Optical regulation of endogenous RhoA reveals selection of cellular responses by signal amplitude. | Ju J, Lee HN, Ning L, Ryu H, Zhou XX, Chun H, Lee YW, Lee-Richerson AI, Jeong C, Lin MZ, Seong J | Cell reports | 35830815 | Cell Rep | 2022 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/35830815 |
| An orange calcium-modulated bioluminescent indicator for non-invasive activity imaging. | Oh Y, Park Y, Cho JH, Wu H, Paulk NK, Liu LX, Kim N, Kay MA, Wu JC, Lin MZ | Nature chemical biology | 30936501 | Nat Chem Biol | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30936501 |
| Genetically encoded indicators of neuronal activity. | Lin MZ, Schnitzer MJ | Nature neuroscience | 27571193 | Nat Neurosci | 2016 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/27571193 |
| Fluorescent indicators for simultaneous reporting of all four cell cycle phases. | Bajar BT, Lam AJ, Badiee RK, Oh YH, Chu J, Zhou XX, Kim N, Kim BB, Chung M, Yablonovitch AL, Cruz BF, Kulalert K, Tao JJ, Meyer T, Su XD, Lin MZ | Nature methods | 27798610 | Nat Methods | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27798610 |
| Photoswitchable fluorescent proteins: ten years of colorful chemistry and exciting applications. | Zhou XX, Lin MZ | Current opinion in chemical biology | 23876529 | Curr Opin Chem Biol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23876529 |
| Optical control of biological processes by light-switchable proteins. | Fan LZ, Lin MZ | Wiley interdisciplinary reviews. Developmental biology | 25858669 | Wiley Interdiscip Rev Dev Biol | 2015 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/25858669 |
| Investigating neuronal function with optically controllable proteins. | Zhou XX, Pan M, Lin MZ | Frontiers in molecular neuroscience | 26257603 | Front Mol Neurosci | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26257603 |
| Quantitative Multiscale Cell Imaging in Controlled 3D Microenvironments. | Welf ES, Driscoll MK, Dean KM, Schäfer C, Chu J, Davidson MW, Lin MZ, Danuser G, Fiolka R | Developmental cell | 26906741 | Dev Cell | 2016 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/26906741 |
| A Single-Chain Photoswitchable CRISPR-Cas9 Architecture for Light-Inducible Gene Editing and Transcription. | Zhou XX, Zou X, Chung HK, Gao Y, Liu Y, Qi LS, Lin MZ | ACS chemical biology | 28938067 | ACS Chem Biol | 2018 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/28938067 |
| Optobiology: optical control of biological processes via protein engineering. | Kim B, Lin MZ | Biochemical Society transactions | 24059506 | Biochem Soc Trans | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24059506 |
| Structure-guided wavelength tuning in far-red fluorescent proteins. | Ng HL, Lin MZ | Current opinion in structural biology | 27468111 | Curr Opin Struct Biol | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27468111 |
| Understanding Programming of Fungal Iterative Polyketide Synthases: The Biochemical Basis for Regioselectivity by the Methyltransferase Domain in the Lovastatin Megasynthase. | Cacho RA, Thuss J, Xu W, Sanichar R, Gao Z, Nguyen A, Vederas JC, Tang Y | Journal of the American Chemical Society | 26630357 | J Am Chem Soc | 2015 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/26630357 |
| Oxidative trans to cis Isomerization of Olefins in Polyketide Biosynthesis. | Yamamoto T, Tsunematsu Y, Hara K, Suzuki T, Kishimoto S, Kawagishi H, Noguchi H, Hashimoto H, Tang Y, Hotta K, Watanabe K | Angewandte Chemie (International ed. in English) | 27072782 | Angew Chem Int Ed Engl | 2016 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/27072782 |
| Production of New Cladosporin Analogues by Reconstitution of the Polyketide Synthases Responsible for the Biosynthesis of this Antimalarial Agent. | Cochrane RV, Sanichar R, Lambkin GR, Reiz B, Xu W, Tang Y, Vederas JC | Angewandte Chemie (International ed. in English) | 26783060 | Angew Chem Int Ed Engl | 2016 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/26783060 |
| Biochemical Characterization of a Eukaryotic Decalin-Forming Diels-Alderase. | Li L, Yu P, Tang MC, Zou Y, Gao SS, Hung YS, Zhao M, Watanabe K, Houk KN, Tang Y | Journal of the American Chemical Society | 27960349 | J Am Chem Soc | 2016 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/27960349 |
| Mechanism of the P450-Catalyzed Oxidative Cyclization in the Biosynthesis of Griseofulvin. | Grandner JM, Cacho RA, Tang Y, Houk KN | ACS catalysis | 28503354 | ACS Catal | 2016 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/28503354 |
| Collaborative Biosynthesis of Maleimide- and Succinimide-Containing Natural Products by Fungal Polyketide Megasynthases. | Sato M, Dander JE, Sato C, Hung YS, Gao SS, Tang MC, Hang L, Winter JM, Garg NK, Watanabe K, Tang Y | Journal of the American Chemical Society | 28365998 | J Am Chem Soc | 2017 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/28365998 |
| The fumagillin gene cluster, an example of hundreds of genes under veA control in Aspergillus fumigatus. | Dhingra S, Lind AL, Lin HC, Tang Y, Rokas A, Calvo AM | PloS one | 24116213 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24116213 |
| Biosynthesis of fungal indole alkaloids. | Xu W, Gavia DJ, Tang Y | Natural product reports | 25180619 | Nat Prod Rep | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25180619 |
| Generation of complexity in fungal terpene biosynthesis: discovery of a multifunctional cytochrome P450 in the fumagillin pathway. | Lin HC, Tsunematsu Y, Dhingra S, Xu W, Fukutomi M, Chooi YH, Cane DE, Calvo AM, Watanabe K, Tang Y | Journal of the American Chemical Society | 24568283 | J Am Chem Soc | 2014 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/24568283 |
| Elucidation of pseurotin biosynthetic pathway points to trans-acting C-methyltransferase: generation of chemical diversity. | Tsunematsu Y, Fukutomi M, Saruwatari T, Noguchi H, Hotta K, Tang Y, Watanabe K | Angewandte Chemie (International ed. in English) | 24939566 | Angew Chem Int Ed Engl | 2014 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/24939566 |
| Elucidation of the concise biosynthetic pathway of the communesin indole alkaloids. | Lin HC, Chiou G, Chooi YH, McMahon TC, Xu W, Garg NK, Tang Y | Angewandte Chemie (International ed. in English) | 25571861 | Angew Chem Int Ed Engl | 2015 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/25571861 |
| P450-Mediated Coupling of Indole Fragments To Forge Communesin and Unnatural Isomers. | Lin HC, McMahon TC, Patel A, Corsello M, Simon A, Xu W, Zhao M, Houk KN, Garg NK, Tang Y | Journal of the American Chemical Society | 26963294 | J Am Chem Soc | 2016 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/26963294 |
| SAM-dependent enzyme-catalysed pericyclic reactions in natural product biosynthesis. | Ohashi M, Liu F, Hai Y, Chen M, Tang MC, Yang Z, Sato M, Watanabe K, Houk KN, Tang Y | Nature | 28902839 | Nature | 2017 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/28902839 |
| Biosynthesis of Strained Piperazine Alkaloids: Uncovering the Concise Pathway of Herquline A. | Yu X, Liu F, Zou Y, Tang MC, Hang L, Houk KN, Tang Y | Journal of the American Chemical Society | 27690412 | J Am Chem Soc | 2016 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/27690412 |
| The fumagillin biosynthetic gene cluster in Aspergillus fumigatus encodes a cryptic terpene cyclase involved in the formation of β-trans-bergamotene. | Lin HC, Chooi YH, Dhingra S, Xu W, Calvo AM, Tang Y | Journal of the American Chemical Society | 23488861 | J Am Chem Soc | 2013 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/23488861 |
| Identification and characterization of the chaetoviridin and chaetomugilin gene cluster in Chaetomium globosum reveal dual functions of an iterative highly-reducing polyketide synthase. | Winter JM, Sato M, Sugimoto S, Chiou G, Garg NK, Tang Y, Watanabe K | Journal of the American Chemical Society | 23072467 | J Am Chem Soc | 2012 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/23072467 |
| Cyclization of fungal nonribosomal peptides by a terminal condensation-like domain. | Gao X, Haynes SW, Ames BD, Wang P, Vien LP, Walsh CT, Tang Y | Nature chemical biology | 22902615 | Nat Chem Biol | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22902615 |
| Investigation of fungal iterative polyketide synthase functions using partially assembled intermediates. | Gao Z, Wang J, Norquay AK, Qiao K, Tang Y, Vederas JC | Journal of the American Chemical Society | 23356934 | J Am Chem Soc | 2013 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/23356934 |
| Enzyme-Catalyzed Intramolecular Enantioselective Hydroalkoxylation. | Gao SS, Garcia-Borràs M, Barber JS, Hai Y, Duan A, Garg NK, Houk KN, Tang Y | Journal of the American Chemical Society | 28240554 | J Am Chem Soc | 2017 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/28240554 |
| A cytochrome P450 serves as an unexpected terpene cyclase during fungal meroterpenoid biosynthesis. | Chooi YH, Hong YJ, Cacho RA, Tantillo DJ, Tang Y | Journal of the American Chemical Society | 24161266 | J Am Chem Soc | 2013 Nov 13 | https://www.ncbi.nlm.nih.gov/pubmed/24161266 |
| Saccharomyces cerevisiae as a tool for mining, studying and engineering fungal polyketide synthases. | Bond C, Tang Y, Li L | Fungal genetics and biology : FG & B | 26850128 | Fungal Genet Biol | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26850128 |
| Involvement of Lipocalin-like CghA in Decalin-Forming Stereoselective Intramolecular [4+2] Cycloaddition. | Sato M, Yagishita F, Mino T, Uchiyama N, Patel A, Chooi YH, Goda Y, Xu W, Noguchi H, Yamamoto T, Hotta K, Houk KN, Tang Y, Watanabe K | Chembiochem : a European journal of chemical biology | 26360642 | Chembiochem | 2015 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/26360642 |
| Comparison of 10,11-Dehydrocurvularin Polyketide Synthases from Alternaria cinerariae and Aspergillus terreus Highlights Key Structural Motifs. | Cochrane RV, Gao Z, Lambkin GR, Xu W, Winter JM, Marcus SL, Tang Y, Vederas JC | Chembiochem : a European journal of chemical biology | 26493380 | Chembiochem | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26493380 |
| Expanding the structural diversity of polyketides by exploring the cofactor tolerance of an inline methyltransferase domain. | Winter JM, Chiou G, Bothwell IR, Xu W, Garg NK, Luo M, Tang Y | Organic letters | 23837609 | Org Lett | 2013 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/23837609 |
| A carbonate-forming Baeyer-Villiger monooxygenase. | Hu Y, Dietrich D, Xu W, Patel A, Thuss JA, Wang J, Yin WB, Qiao K, Houk KN, Vederas JC, Tang Y | Nature chemical biology | 24838010 | Nat Chem Biol | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24838010 |
| Biochemical and Structural Basis for Controlling Chemical Modularity in Fungal Polyketide Biosynthesis. | Winter JM, Cascio D, Dietrich D, Sato M, Watanabe K, Sawaya MR, Vederas JC, Tang Y | Journal of the American Chemical Society | 26172141 | J Am Chem Soc | 2015 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/26172141 |
| EcdGHK are three tailoring iron oxygenases for amino acid building blocks of the echinocandin scaffold. | Jiang W, Cacho RA, Chiou G, Garg NK, Tang Y, Walsh CT | Journal of the American Chemical Society | 23451921 | J Am Chem Soc | 2013 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/23451921 |
| Resistance-gene-directed discovery of a natural-product herbicide with a new mode of action. | Yan Y, Liu Q, Zang X, Yuan S, Bat-Erdene U, Nguyen C, Gan J, Zhou J, Jacobsen SE, Tang Y | Nature | 29995859 | Nature | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29995859 |
| Enzymatic one-step ring contraction for quinolone biosynthesis. | Kishimoto S, Hara K, Hashimoto H, Hirayama Y, Champagne PA, Houk KN, Tang Y, Watanabe K | Nature communications | 30026518 | Nat Commun | 2018 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/30026518 |
| Structural basis of nonribosomal peptide macrocyclization in fungi. | Zhang J, Liu N, Cacho RA, Gong Z, Liu Z, Qin W, Tang C, Tang Y, Zhou J | Nature chemical biology | 27748753 | Nat Chem Biol | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27748753 |
| Epigenetic genome mining of an endophytic fungus leads to the pleiotropic biosynthesis of natural products. | Mao XM, Xu W, Li D, Yin WB, Chooi YH, Li YQ, Tang Y, Hu Y | Angewandte Chemie (International ed. in English) | 26013262 | Angew Chem Int Ed Engl | 2015 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/26013262 |
| Discovery of Unclustered Fungal Indole Diterpene Biosynthetic Pathways through Combinatorial Pathway Reassembly in Engineered Yeast. | Tang MC, Lin HC, Li D, Zou Y, Li J, Xu W, Cacho RA, Hillenmeyer ME, Garg NK, Tang Y | Journal of the American Chemical Society | 26469304 | J Am Chem Soc | 2015 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/26469304 |
| Reversible Product Release and Recapture by a Fungal Polyketide Synthase Using a Carnitine Acyltransferase Domain. | Hang L, Tang MC, Harvey CJB, Page CG, Li J, Hung YS, Liu N, Hillenmeyer ME, Tang Y | Angewandte Chemie (International ed. in English) | 28679030 | Angew Chem Int Ed Engl | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28679030 |
| Genome Mining and Assembly-Line Biosynthesis of the UCS1025A Pyrrolizidinone Family of Fungal Alkaloids. | Li L, Tang MC, Tang S, Gao S, Soliman S, Hang L, Xu W, Ye T, Watanabe K, Tang Y | Journal of the American Chemical Society | 29373009 | J Am Chem Soc | 2018 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/29373009 |
| Complexity generation in fungal polyketide biosynthesis: a spirocycle-forming P450 in the concise pathway to the antifungal drug griseofulvin. | Cacho RA, Chooi YH, Zhou H, Tang Y | ACS chemical biology | 23978092 | ACS Chem Biol | 2013 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/23978092 |
| Next-generation sequencing approach for connecting secondary metabolites to biosynthetic gene clusters in fungi. | Cacho RA, Tang Y, Chooi YH | Frontiers in microbiology | 25642215 | Front Microbiol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25642215 |
| Biosynthesis of the α-nitro-containing cyclic tripeptide psychrophilin. | Zhao M, Lin HC, Tang Y | The Journal of antibiotics | 26956794 | J Antibiot (Tokyo) | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26956794 |
| Combinatorial Generation of Chemical Diversity by Redox Enzymes in Chaetoviridin Biosynthesis. | Sato M, Winter JM, Kishimoto S, Noguchi H, Tang Y, Watanabe K | Organic letters | 26959241 | Org Lett | 2016 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/26959241 |
| Identification and Heterologous Production of a Benzoyl-Primed Tricarboxylic Acid Polyketide Intermediate from the Zaragozic Acid A Biosynthetic Pathway. | Liu N, Hung YS, Gao SS, Hang L, Zou Y, Chooi YH, Tang Y | Organic letters | 28605916 | Org Lett | 2017 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/28605916 |
| Identification of the Pyranonigrin A Biosynthetic Gene Cluster by Genome Mining in Penicillium thymicola IBT 5891. | Tang MC, Zou Y, Yee D, Tang Y | AIChE journal. American Institute of Chemical Engineers | 31588145 | AIChE J | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31588145 |
| Efficient Biosynthesis of Fungal Polyketides Containing the Dioxabicyclo-octane Ring System. | Mao XM, Zhan ZJ, Grayson MN, Tang MC, Xu W, Li YQ, Yin WB, Lin HC, Chooi YH, Houk KN, Tang Y | Journal of the American Chemical Society | 26340065 | J Am Chem Soc | 2015 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/26340065 |
| Identification and characterization of the echinocandin B biosynthetic gene cluster from Emericella rugulosa NRRL 11440. | Cacho RA, Jiang W, Chooi YH, Walsh CT, Tang Y | Journal of the American Chemical Society | 22998630 | J Am Chem Soc | 2012 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/22998630 |
| Genome mining of a prenylated and immunosuppressive polyketide from pathogenic fungi. | Chooi YH, Fang J, Liu H, Filler SG, Wang P, Tang Y | Organic letters | 23368997 | Org Lett | 2013 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/23368997 |
| Enzyme-catalyzed cationic epoxide rearrangements in quinolone alkaloid biosynthesis. | Zou Y, Garcia-Borràs M, Tang MC, Hirayama Y, Li DH, Li L, Watanabe K, Houk KN, Tang Y | Nature chemical biology | 28114276 | Nat Chem Biol | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28114276 |
| Phenalenone Polyketide Cyclization Catalyzed by Fungal Polyketide Synthase and Flavin-Dependent Monooxygenase. | Gao SS, Duan A, Xu W, Yu P, Hang L, Houk KN, Tang Y | Journal of the American Chemical Society | 26978228 | J Am Chem Soc | 2016 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/26978228 |
| Fungal polyketide synthase product chain-length control by partnering thiohydrolase. | Zabala AO, Chooi YH, Choi MS, Lin HC, Tang Y | ACS chemical biology | 24845309 | ACS Chem Biol | 2014 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/24845309 |
| Coordinated and Iterative Enzyme Catalysis in Fungal Polyketide Biosynthesis. | Hang L, Liu N, Tang Y | ACS catalysis | 28529817 | ACS Catal | 2016 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/28529817 |
| Discovery of cryptic polyketide metabolites from dermatophytes using heterologous expression in Aspergillus nidulans. | Yin WB, Chooi YH, Smith AR, Cacho RA, Hu Y, White TC, Tang Y | ACS synthetic biology | 23758576 | ACS Synth Biol | 2013 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/23758576 |
| Short pathways to complexity generation: fungal peptidyl alkaloid multicyclic scaffolds from anthranilate building blocks. | Walsh CT, Haynes SW, Ames BD, Gao X, Tang Y | ACS chemical biology | 23659680 | ACS Chem Biol | 2013 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/23659680 |
| Tandem prenyltransferases catalyze isoprenoid elongation and complexity generation in biosynthesis of quinolone alkaloids. | Zou Y, Zhan Z, Li D, Tang M, Cacho RA, Watanabe K, Tang Y | Journal of the American Chemical Society | 25859931 | J Am Chem Soc | 2015 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/25859931 |
| Methylation-dependent acyl transfer between polyketide synthase and nonribosomal peptide synthetase modules in fungal natural product biosynthesis. | Zou Y, Xu W, Tsunematsu Y, Tang M, Watanabe K, Tang Y | Organic letters | 25494235 | Org Lett | 2014 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/25494235 |
| Thioesterase-Catalyzed Aminoacylation and Thiolation of Polyketides in Fungi. | Tang MC, Fischer CR, Chari JV, Tan D, Suresh S, Chu A, Miranda M, Smith J, Zhang Z, Garg NK, St Onge RP, Tang Y | Journal of the American Chemical Society | 31051070 | J Am Chem Soc | 2019 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/31051070 |
| Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes. | Beliveau BJ, Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT | Proceedings of the National Academy of Sciences of the United States of America | 23236188 | Proc Natl Acad Sci U S A | 2012 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/23236188 |
| Scalable amplification of strand subsets from chip-synthesized oligonucleotide libraries. | Schmidt TL, Beliveau BJ, Uca YO, Theilmann M, Da Cruz F, Wu CT, Shih WM | Nature communications | 26567534 | Nat Commun | 2015 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/26567534 |
| Spatial organization of chromatin domains and compartments in single chromosomes. | Wang S, Su JH, Beliveau BJ, Bintu B, Moffitt JR, Wu CT, Zhuang X | Science (New York, N.Y.) | 27445307 | Science | 2016 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/27445307 |
| A multiplexed DNA FISH strategy for assessing genome architecture in Caenorhabditis elegans. | Fields BD, Nguyen SC, Nir G, Kennedy S | eLife | 31084706 | Elife | 2019 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/31084706 |
| Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling. | Nir G, Farabella I, Pérez Estrada C, Ebeling CG, Beliveau BJ, Sasaki HM, Lee SD, Nguyen SC, McCole RB, Chattoraj S, Erceg J, AlHaj Abed J, Martins NMC, Nguyen HQ, Hannan MA, Russell S, Durand NC, Rao SSP, Kishi JY, Soler-Vila P, Di Pierro M, Onuchic JN, Callahan SP, Schreiner JM, Stuckey JA, Yin P, Aiden EL, Marti-Renom MA, Wu CT | PLoS genetics | 30586358 | PLoS Genet | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30586358 |
| Germline progenitors escape the widespread phenomenon of homolog pairing during Drosophila development. | Joyce EF, Apostolopoulos N, Beliveau BJ, Wu CT | PLoS genetics | 24385920 | PLoS Genet | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24385920 |
| In Situ Super-Resolution Imaging of Genomic DNA with OligoSTORM and OligoDNA-PAINT. | Beliveau BJ, Boettiger AN, Nir G, Bintu B, Yin P, Zhuang X, Wu CT | Methods in molecular biology (Clifton, N.J.) | 28924672 | Methods Mol Biol | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28924672 |
| Highly structured homolog pairing reflects functional organization of the Drosophila genome. | AlHaj Abed J, Erceg J, Goloborodko A, Nguyen SC, McCole RB, Saylor W, Fudenberg G, Lajoie BR, Dekker J, Mirny LA, Wu CT | Nature communications | 31582763 | Nat Commun | 2019 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/31582763 |
| Genes with monoallelic expression contribute disproportionately to genetic diversity in humans. | Savova V, Chun S, Sohail M, McCole RB, Witwicki R, Gai L, Lenz TL, Wu CT, Sunyaev SR, Gimelbrant AA | Nature genetics | 26808112 | Nat Genet | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26808112 |
| 3D mapping and accelerated super-resolution imaging of the human genome using in situ sequencing. | Nguyen HQ, Chattoraj S, Castillo D, Nguyen SC, Nir G, Lioutas A, Hershberg EA, Martins NMC, Reginato PL, Hannan M, Beliveau BJ, Church GM, Daugharthy ER, Marti-Renom MA, Wu CT | Nature methods | 32719531 | Nat Methods | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32719531 |
| Pairing and anti-pairing: a balancing act in the diploid genome. | Joyce EF, Erceg J, Wu CT | Current opinion in genetics & development | 27065367 | Curr Opin Genet Dev | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27065367 |
| Combined in vitro transcription and reverse transcription to amplify and label complex synthetic oligonucleotide probe libraries. | Murgha Y, Beliveau B, Semrau K, Schwartz D, Wu CT, Gulari E, Rouillard JM | BioTechniques | 26054766 | Biotechniques | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26054766 |
| Super-resolution imaging reveals distinct chromatin folding for different epigenetic states. | Boettiger AN, Bintu B, Moffitt JR, Wang S, Beliveau BJ, Fudenberg G, Imakaev M, Mirny LA, Wu CT, Zhuang X | Nature | 26760202 | Nature | 2016 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/26760202 |
| Visualizing genomes with Oligopaint FISH probes. | Beliveau BJ, Apostolopoulos N, Wu CT | Current protocols in molecular biology | 24510436 | Curr Protoc Mol Biol | 2014 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/24510436 |
| Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes. | Beliveau BJ, Boettiger AN, Avendaño MS, Jungmann R, McCole RB, Joyce EF, Kim-Kiselak C, Bantignies F, Fonseka CY, Erceg J, Hannan MA, Hoang HG, Colognori D, Lee JT, Shih WM, Yin P, Zhuang X, Wu CT | Nature communications | 25962338 | Nat Commun | 2015 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/25962338 |
| OligoMiner provides a rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes. | Beliveau BJ, Kishi JY, Nir G, Sasaki HM, Saka SK, Nguyen SC, Wu CT, Yin P | Proceedings of the National Academy of Sciences of the United States of America | 29463736 | Proc Natl Acad Sci U S A | 2018 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/29463736 |
| Islands of retroelements are major components of Drosophila centromeres. | Chang CH, Chavan A, Palladino J, Wei X, Martins NMC, Santinello B, Chen CC, Erceg J, Beliveau BJ, Wu CT, Larracuente AM, Mellone BG | PLoS biology | 31086362 | PLoS Biol | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/31086362 |
| Investigating the Interplay between Sister Chromatid Cohesion and Homolog Pairing in Drosophila Nuclei. | Senaratne TN, Joyce EF, Nguyen SC, Wu CT | PLoS genetics | 27541002 | PLoS Genet | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27541002 |
| An Unexpected Regulatory Cascade Governs a Core Function of the Drosophila PRC1 Chromatin Protein Su(z)2. | Nguyen SC, Yu S, Oberlick E, Wu CT | Genetics | 27881472 | Genetics | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27881472 |
| Ultraconserved Elements Occupy Specific Arenas of Three-Dimensional Mammalian Genome Organization. | McCole RB, Erceg J, Saylor W, Wu CT | Cell reports | 29996107 | Cell Rep | 2018 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/29996107 |
| Pericentromeric heterochromatin is hierarchically organized and spatially contacts H3K9me2 islands in euchromatin. | Lee YCG, Ogiyama Y, Martins NMC, Beliveau BJ, Acevedo D, Wu CT, Cavalli G, Karpen GH | PLoS genetics | 32203508 | PLoS Genet | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32203508 |
| Rapid capture and labeling of cells on single domain antibodies-functionalized flow cell. | Chen GY, Li Z, Duarte JN, Esteban A, Cheloha RW, Theile CS, Fink GR, Ploegh HL | Biosensors & bioelectronics | 27816596 | Biosens Bioelectron | 2017 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/27816596 |
| Tissue-specific emergence of regulatory and intraepithelial T cells from a clonal T cell precursor. | Bilate AM, Bousbaine D, Mesin L, Agudelo M, Leube J, Kratzert A, Dougan SK, Victora GD, Ploegh HL | Science immunology | 28783695 | Sci Immunol | 2016 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/28783695 |
| Localized CD47 blockade enhances immunotherapy for murine melanoma. | Ingram JR, Blomberg OS, Sockolosky JT, Ali L, Schmidt FI, Pishesha N, Espinosa C, Dougan SK, Garcia KC, Ploegh HL, Dougan M | Proceedings of the National Academy of Sciences of the United States of America | 28874561 | Proc Natl Acad Sci U S A | 2017 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/28874561 |
| PD-L1 is an activation-independent marker of brown adipocytes. | Ingram JR, Dougan M, Rashidian M, Knoll M, Keliher EJ, Garrett S, Garforth S, Blomberg OS, Espinosa C, Bhan A, Almo SC, Weissleder R, Lodish H, Dougan SK, Ploegh HL | Nature communications | 28935898 | Nat Commun | 2017 Sep 21 | https://www.ncbi.nlm.nih.gov/pubmed/28935898 |
| Engineered red blood cells as carriers for systemic delivery of a wide array of functional probes. | Shi J, Kundrat L, Pishesha N, Bilate A, Theile C, Maruyama T, Dougan SK, Ploegh HL, Lodish HF | Proceedings of the National Academy of Sciences of the United States of America | 24982154 | Proc Natl Acad Sci U S A | 2014 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/24982154 |
| Graphene Oxide Nanosheets Modified with Single-Domain Antibodies for Rapid and Efficient Capture of Cells. | Chen GY, Li Z, Theile CS, Bardhan NM, Kumar PV, Duarte JN, Maruyama T, Rashidfarrokh A, Belcher AM, Ploegh HL | Chemistry (Weinheim an der Bergstrasse, Germany) | 26472062 | Chemistry | 2015 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/26472062 |
| In vitro AMPylation Assays Using Purified, Recombinant Proteins. | Truttmann MC, Ploegh HL | Bio-protocol | 29170749 | Bio Protoc | 2017 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/29170749 |
| Phenotypic lentivirus screens to identify functional single domain antibodies. | Schmidt FI, Hanke L, Morin B, Brewer R, Brusic V, Whelan SP, Ploegh HL | Nature microbiology | 27573105 | Nat Microbiol | 2016 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/27573105 |
| Targeted antigen delivery by an anti-class II MHC VHH elicits focused αMUC1(Tn) immunity. | Fang T, Van Elssen CHMJ, Duarte JN, Guzman JS, Chahal JS, Ling J, Ploegh HL | Chemical science | 28970938 | Chem Sci | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28970938 |
| Posttranscriptional Regulation of Glycoprotein Quality Control in the Endoplasmic Reticulum Is Controlled by the E2 Ub-Conjugating Enzyme UBC6e. | Hagiwara M, Ling J, Koenig PA, Ploegh HL | Molecular cell | 27570074 | Mol Cell | 2016 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/27570074 |
| Predicting the response to CTLA-4 blockade by longitudinal noninvasive monitoring of CD8 T cells. | Rashidian M, Ingram JR, Dougan M, Dongre A, Whang KA, LeGall C, Cragnolini JJ, Bierie B, Gostissa M, Gorman J, Grotenbreg GM, Bhan A, Weinberg RA, Ploegh HL | The Journal of experimental medicine | 28666979 | J Exp Med | 2017 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/28666979 |
| rAMPing Up Stress Signaling: Protein AMPylation in Metazoans. | Truttmann MC, Ploegh HL | Trends in cell biology | 28433487 | Trends Cell Biol | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28433487 |
| Generation of Immunity against Pathogens via Single-Domain Antibody-Antigen Constructs. | Duarte JN, Cragnolini JJ, Swee LK, Bilate AM, Bader J, Ingram JR, Rashidfarrokhi A, Fang T, Schiepers A, Hanke L, Ploegh HL | Journal of immunology (Baltimore, Md. : 1950) | 27821668 | J Immunol | 2016 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/27821668 |
| Allosteric activation of apicomplexan calcium-dependent protein kinases. | Ingram JR, Knockenhauer KE, Markus BM, Mandelbaum J, Ramek A, Shan Y, Shaw DE, Schwartz TU, Ploegh HL, Lourido S | Proceedings of the National Academy of Sciences of the United States of America | 26305940 | Proc Natl Acad Sci U S A | 2015 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/26305940 |
| Noninvasive imaging of immune responses. | Rashidian M, Keliher EJ, Bilate AM, Duarte JN, Wojtkiewicz GR, Jacobsen JT, Cragnolini J, Swee LK, Victora GD, Weissleder R, Ploegh HL | Proceedings of the National Academy of Sciences of the United States of America | 25902531 | Proc Natl Acad Sci U S A | 2015 May 12 | https://www.ncbi.nlm.nih.gov/pubmed/25902531 |
| Enzyme-Mediated Modification of Single-Domain Antibodies for Imaging Modalities with Different Characteristics. | Rashidian M, Wang L, Edens JG, Jacobsen JT, Hossain I, Wang Q, Victora GD, Vasdev N, Ploegh H, Liang SH | Angewandte Chemie (International ed. in English) | 26630549 | Angew Chem Int Ed Engl | 2016 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/26630549 |
| Enhanced Cell Capture on Functionalized Graphene Oxide Nanosheets through Oxygen Clustering. | Bardhan NM, Kumar PV, Li Z, Ploegh HL, Grossman JC, Belcher AM, Chen GY | ACS nano | 28085249 | ACS Nano | 2017 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/28085249 |
| Structures of TorsinA and its disease-mutant complexed with an activator reveal the molecular basis for primary dystonia. | Demircioglu FE, Sosa BA, Ingram J, Ploegh HL, Schwartz TU | eLife | 27490483 | Elife | 2016 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/27490483 |
| Rapid and Direct VHH and Target Identification by Staphylococcal Surface Display Libraries. | Cavallari M | International journal of molecular sciences | 28704956 | Int J Mol Sci | 2017 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/28704956 |
| Epithelial-to-Mesenchymal Transition Contributes to Immunosuppression in Breast Carcinomas. | Dongre A, Rashidian M, Reinhardt F, Bagnato A, Keckesova Z, Ploegh HL, Weinberg RA | Cancer research | 28428275 | Cancer Res | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28428275 |
| Anti-CTLA-4 therapy requires an Fc domain for efficacy. | Ingram JR, Blomberg OS, Rashidian M, Ali L, Garforth S, Fedorov E, Fedorov AA, Bonanno JB, Le Gall C, Crowley S, Espinosa C, Biary T, Keliher EJ, Weissleder R, Almo SC, Dougan SK, Ploegh HL, Dougan M | Proceedings of the National Academy of Sciences of the United States of America | 29581255 | Proc Natl Acad Sci U S A | 2018 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/29581255 |
| Intracellular expression of camelid single-domain antibodies specific for influenza virus nucleoprotein uncovers distinct features of its nuclear localization. | Ashour J, Schmidt FI, Hanke L, Cragnolini J, Cavallari M, Altenburg A, Brewer R, Ingram J, Shoemaker C, Ploegh HL | Journal of virology | 25540369 | J Virol | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25540369 |
| Production of unnaturally linked chimeric proteins using a combination of sortase-catalyzed transpeptidation and click chemistry. | Witte MD, Theile CS, Wu T, Guimaraes CP, Blom AE, Ploegh HL | Nature protocols | 23989675 | Nat Protoc | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23989675 |
| Crystal structure of a substrate-engaged SecY protein-translocation channel. | Li L, Park E, Ling J, Ingram J, Ploegh H, Rapoport TA | Nature | 26950603 | Nature | 2016 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/26950603 |
| The use of (18)F-2-fluorodeoxyglucose (FDG) to label antibody fragments for immuno-PET of pancreatic cancer. | Rashidian M, Keliher E, Dougan M, Juras PK, Cavallari M, Wojtkiewicz GR, Jacobsen J, Edens JG, Tas JM, Victora G, Weissleder R, Ploegh H | ACS central science | 26955657 | ACS Cent Sci | 2015 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/26955657 |
| One-step enzymatic modification of the cell surface redirects cellular cytotoxicity and parasite tropism. | Swee LK, Lourido S, Bell GW, Ingram JR, Ploegh HL | ACS chemical biology | 25360987 | ACS Chem Biol | 2015 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/25360987 |
| The Antiviral Mechanism of an Influenza A Virus Nucleoprotein-Specific Single-Domain Antibody Fragment. | Hanke L, Knockenhauer KE, Brewer RC, van Diest E, Schmidt FI, Schwartz TU, Ploegh HL | mBio | 27965447 | mBio | 2016 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/27965447 |
| Noninvasive Imaging of Human Immune Responses in a Human Xenograft Model of Graft-Versus-Host Disease. | Van Elssen CHMJ, Rashidian M, Vrbanac V, Wucherpfennig KW, Habre ZE, Sticht J, Freund C, Jacobsen JT, Cragnolini J, Ingram J, Plaisier L, Spierings E, Tager AM, Ploegh HL | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 28209904 | J Nucl Med | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28209904 |
| Vesicular stomatitis virus N protein-specific single-domain antibody fragments inhibit replication. | Hanke L, Schmidt FI, Knockenhauer KE, Morin B, Whelan SP, Schwartz TU, Ploegh HL | EMBO reports | 28396572 | EMBO Rep | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28396572 |
| HypE-specific nanobodies as tools to modulate HypE-mediated target AMPylation. | Truttmann MC, Wu Q, Stiegeler S, Duarte JN, Ingram J, Ploegh HL | The Journal of biological chemistry | 25678711 | J Biol Chem | 2015 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/25678711 |
| Structurally Defined αMHC-II Nanobody-Drug Conjugates: A Therapeutic and Imaging System for B-Cell Lymphoma. | Fang T, Duarte JN, Ling J, Li Z, Guzman JS, Ploegh HL | Angewandte Chemie (International ed. in English) | 26840214 | Angew Chem Int Ed Engl | 2016 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/26840214 |
| How lamina-associated polypeptide 1 (LAP1) activates Torsin. | Sosa BA, Demircioglu FE, Chen JZ, Ingram J, Ploegh HL, Schwartz TU | eLife | 25149450 | Elife | 2014 Aug 22 | https://www.ncbi.nlm.nih.gov/pubmed/25149450 |
| Durable antitumor responses to CD47 blockade require adaptive immune stimulation. | Sockolosky JT, Dougan M, Ingram JR, Ho CC, Kauke MJ, Almo SC, Ploegh HL, Garcia KC | Proceedings of the National Academy of Sciences of the United States of America | 27091975 | Proc Natl Acad Sci U S A | 2016 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/27091975 |
| Antigen-specific B-cell receptor sensitizes B cells to infection by influenza virus. | Dougan SK, Ashour J, Karssemeijer RA, Popp MW, Avalos AM, Barisa M, Altenburg AF, Ingram JR, Cragnolini JJ, Guo C, Alt FW, Jaenisch R, Ploegh HL | Nature | 24141948 | Nature | 2013 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/24141948 |
| Structural biology. Structural basis for chemokine recognition and activation of a viral G protein-coupled receptor. | Burg JS, Ingram JR, Venkatakrishnan AJ, Jude KM, Dukkipati A, Feinberg EN, Angelini A, Waghray D, Dror RO, Ploegh HL, Garcia KC | Science (New York, N.Y.) | 25745166 | Science | 2015 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/25745166 |
| Fluorophore-Conjugated Holliday Junctions for Generating Super-Bright Antibodies and Antibody Fragments. | Li Z, Theile CS, Chen GY, Bilate AM, Duarte JN, Avalos AM, Fang T, Barberena R, Sato S, Ploegh HL | Angewandte Chemie (International ed. in English) | 26252716 | Angew Chem Int Ed Engl | 2015 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/26252716 |
| Insights into the regulation of protein abundance from proteomic and transcriptomic analyses. | Vogel C, Marcotte EM | Nature reviews. Genetics | 22411467 | Nat Rev Genet | 2012 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/22411467 |
| Systematic comparison of variant calling pipelines using gold standard personal exome variants. | Hwang S, Kim E, Lee I, Marcotte EM | Scientific reports | 26639839 | Sci Rep | 2015 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/26639839 |
| Systems-wide Studies Uncover Commander, a Multiprotein Complex Essential to Human Development. | Mallam AL, Marcotte EM | Cell systems | 28544880 | Cell Syst | 2017 May 24 | https://www.ncbi.nlm.nih.gov/pubmed/28544880 |
| An efficient methodology to introduce o-(aminomethyl)phenyl-boronic acids into peptides: alkylation of secondary amines. | Hernandez ET, Kolesnichenko IV, Reuther JF, Anslyn EV | New journal of chemistry = Nouveau journal de chimie | 28649175 | New J Chem | 2017 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/28649175 |
| The DEAH-box helicase Dhr1 dissociates U3 from the pre-rRNA to promote formation of the central pseudoknot. | Sardana R, Liu X, Granneman S, Zhu J, Gill M, Papoulas O, Marcotte EM, Tollervey D, Correll CC, Johnson AW | PLoS biology | 25710520 | PLoS Biol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25710520 |
| A theoretical justification for single molecule peptide sequencing. | Swaminathan J, Boulgakov AA, Marcotte EM | PLoS computational biology | 25714988 | PLoS Comput Biol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25714988 |
| Photography Coupled with Self-Propagating Chemical Cascades: Differentiation and Quantitation of G- and V-Nerve Agent Mimics via Chromaticity. | Sun X, Boulgakov AA, Smith LN, Metola P, Marcotte EM, Anslyn EV | ACS central science | 30062113 | ACS Cent Sci | 2018 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/30062113 |
| The Many Nuanced Evolutionary Consequences of Duplicated Genes. | Teufel AI, Johnson MM, Laurent JM, Kachroo AH, Marcotte EM, Wilke CO | Molecular biology and evolution | 30428072 | Mol Biol Evol | 2019 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/30428072 |
| 2,2'-Bipyridine and hydrazide containing peptides for cyclization and complex quaternary structural control. | Hernandez ET, Rogelio Escamilla P, Kwon SY, Partridge J, McVeigh M, Rivera S, Reuther JF, Anslyn EV | New journal of chemistry = Nouveau journal de chimie | 30386131 | New J Chem | 2018 Jun 7 | https://www.ncbi.nlm.nih.gov/pubmed/30386131 |
| Solution-phase and solid-phase sequential, selective modification of side chains in KDYWEC and KDYWE as models for usage in single-molecule protein sequencing. | Hernandez ET, Swaminathan J, Marcotte EM, Anslyn EV | New journal of chemistry = Nouveau journal de chimie | 28983186 | New J Chem | 2017 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/28983186 |
| A proteomic survey of widespread protein aggregation in yeast. | O'Connell JD, Tsechansky M, Royal A, Boutz DR, Ellington AD, Marcotte EM | Molecular bioSystems | 24488121 | Mol Biosyst | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24488121 |
| Statistical approach to protein quantification. | Gerster S, Kwon T, Ludwig C, Matondo M, Vogel C, Marcotte EM, Aebersold R, Bühlmann P | Molecular & cellular proteomics : MCP | 24255132 | Mol Cell Proteomics | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24255132 |
| A census of human soluble protein complexes. | Havugimana PC, Hart GT, Nepusz T, Yang H, Turinsky AL, Li Z, Wang PI, Boutz DR, Fong V, Phanse S, Babu M, Craig SA, Hu P, Wan C, Vlasblom J, Dar VU, Bezginov A, Clark GW, Wu GC, Wodak SJ, Tillier ER, Paccanaro A, Marcotte EM, Emili A | Cell | 22939629 | Cell | 2012 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/22939629 |
| The proteomic response to mutants of the Escherichia coli RNA degradosome. | Zhou L, Zhang AB, Wang R, Marcotte EM, Vogel C | Molecular bioSystems | 23403814 | Mol Biosyst | 2013 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/23403814 |
| MouseNet v2: a database of gene networks for studying the laboratory mouse and eight other model vertebrates. | Kim E, Hwang S, Kim H, Shim H, Kang B, Yang S, Shim JH, Shin SY, Marcotte EM, Lee I | Nucleic acids research | 26527726 | Nucleic Acids Res | 2016 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/26527726 |
| Computational discovery of pathway-level genetic vulnerabilities in non-small-cell lung cancer. | Young JH, Peyton M, Seok Kim H, McMillan E, Minna JD, White MA, Marcotte EM | Bioinformatics (Oxford, England) | 26755624 | Bioinformatics | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/26755624 |
| Evolution. Systematic humanization of yeast genes reveals conserved functions and genetic modularity. | Kachroo AH, Laurent JM, Yellman CM, Meyer AG, Wilke CO, Marcotte EM | Science (New York, N.Y.) | 25999509 | Science | 2015 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/25999509 |
| Proteome-wide dataset supporting the study of ancient metazoan macromolecular complexes. | Phanse S, Wan C, Borgeson B, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, Boutz DR, Stoilova S, Havugimana PC, Guo X, Malty RH, Sarov M, Greenblatt J, Babu M, Derry WB, Tillier ER, Wallingford JB, Parkinson J, Marcotte EM, Emili A | Data in brief | 26870755 | Data Brief | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26870755 |
| Protein localization screening in vivo reveals novel regulators of multiciliated cell development and function. | Tu F, Sedzinski J, Ma Y, Marcotte EM, Wallingford JB | Journal of cell science | 29180514 | J Cell Sci | 2018 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/29180514 |
| Single-step Precision Genome Editing in Yeast Using CRISPR-Cas9. | Akhmetov A, Laurent JM, Gollihar J, Gardner EC, Garge RK, Ellington AD, Kachroo AH, Marcotte EM | Bio-protocol | 29770349 | Bio Protoc | 2018 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/29770349 |
| Paternal chromosome loss and metabolic crisis contribute to hybrid inviability in Xenopus. | Gibeaux R, Acker R, Kitaoka M, Georgiou G, van Kruijsbergen I, Ford B, Marcotte EM, Nomura DK, Kwon T, Veenstra GJC, Heald R | Nature | 29320479 | Nature | 2018 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/29320479 |
| Intrinsic Antimicrobial Resistance Determinants in the Superbug Pseudomonas aeruginosa. | Murray JL, Kwon T, Marcotte EM, Whiteley M | mBio | 26507235 | mBio | 2015 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/26507235 |
| Efforts to make and apply humanized yeast. | Laurent JM, Young JH, Kachroo AH, Marcotte EM | Briefings in functional genomics | 26462863 | Brief Funct Genomics | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26462863 |
| Panorama of ancient metazoan macromolecular complexes. | Wan C, Borgeson B, Phanse S, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, Boutz DR, Stoilova S, Havugimana PC, Guo X, Malty RH, Sarov M, Greenblatt J, Babu M, Derry WB, Tillier ER, Wallingford JB, Parkinson J, Marcotte EM, Emili A | Nature | 26344197 | Nature | 2015 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/26344197 |
| Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness. | Hammerling MJ, Ellefson JW, Boutz DR, Marcotte EM, Ellington AD, Barrick JE | Nature chemical biology | 24487692 | Nat Chem Biol | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24487692 |
| Metabolic crosstalk regulates Porphyromonas gingivalis colonization and virulence during oral polymicrobial infection. | Kuboniwa M, Houser JR, Hendrickson EL, Wang Q, Alghamdi SA, Sakanaka A, Miller DP, Hutcherson JA, Wang T, Beck DAC, Whiteley M, Amano A, Wang H, Marcotte EM, Hackett M, Lamont RJ | Nature microbiology | 28924191 | Nat Microbiol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28924191 |
| Towards Consensus Gene Ages. | Liebeskind BJ, McWhite CD, Marcotte EM | Genome biology and evolution | 27259914 | Genome Biol Evol | 2016 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/27259914 |
| Sperm is epigenetically programmed to regulate gene transcription in embryos. | Teperek M, Simeone A, Gaggioli V, Miyamoto K, Allen GE, Erkek S, Kwon T, Marcotte EM, Zegerman P, Bradshaw CR, Peters AH, Gurdon JB, Jullien J | Genome research | 27034506 | Genome Res | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27034506 |
| Lanthanide nano-drums: a new class of molecular nanoparticles for potential biomedical applications. | Jones RA, Gnanam AJ, Arambula JF, Jones JN, Swaminathan J, Yang X, Schipper D, Hall JW, DePue LJ, Dieye Y, Vadivelu J, Chandler DJ, Marcotte EM, Sessler JL, Ehrlich LI, Brown KA | Faraday discussions | 25284181 | Faraday Discuss | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25284181 |
| Controlled Measurement and Comparative Analysis of Cellular Components in E. coli Reveals Broad Regulatory Changes in Response to Glucose Starvation. | Houser JR, Barnhart C, Boutz DR, Carroll SM, Dasgupta A, Michener JK, Needham BD, Papoulas O, Sridhara V, Sydykova DK, Marx CJ, Trent MS, Barrick JE, Marcotte EM, Wilke CO | PLoS computational biology | 26275208 | PLoS Comput Biol | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26275208 |
| Improved Xanthone Synthesis, Stepwise Chemical Redox Cycling. | Bachman JL, Escamilla PR, Boley AJ, Pavlich CI, Anslyn EV | Organic letters | 30582707 | Org Lett | 2019 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/30582707 |
| Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes. | Drew K, Lee C, Huizar RL, Tu F, Borgeson B, McWhite CD, Ma Y, Wallingford JB, Marcotte EM | Molecular systems biology | 28596423 | Mol Syst Biol | 2017 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/28596423 |
| Applications of comparative evolution to human disease genetics. | McWhite CD, Liebeskind BJ, Marcotte EM | Current opinion in genetics & development | 26338499 | Curr Opin Genet Dev | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26338499 |
| UVnovo: A de Novo Sequencing Algorithm Using Single Series of Fragment Ions via Chromophore Tagging and 351 nm Ultraviolet Photodissociation Mass Spectrometry. | Robotham SA, Horton AP, Cannon JR, Cotham VC, Marcotte EM, Brodbelt JS | Analytical chemistry | 26938041 | Anal Chem | 2016 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/26938041 |
| Systematic bacterialization of yeast genes identifies a near-universally swappable pathway. | Kachroo AH, Laurent JM, Akhmetov A, Szilagyi-Jones M, McWhite CD, Zhao A, Marcotte EM | eLife | 28661399 | Elife | 2017 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/28661399 |
| Systematic Discovery of Endogenous Human Ribonucleoprotein Complexes. | Mallam AL, Sae-Lee W, Schaub JM, Tu F, Battenhouse A, Jang YJ, Kim J, Wallingford JB, Finkelstein IJ, Marcotte EM, Drew K | Cell reports | 31665645 | Cell Rep | 2019 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/31665645 |
| Long-term neural and physiological phenotyping of a single human. | Poldrack RA, Laumann TO, Koyejo O, Gregory B, Hover A, Chen MY, Gorgolewski KJ, Luci J, Joo SJ, Boyd RL, Hunicke-Smith S, Simpson ZB, Caven T, Sochat V, Shine JM, Gordon E, Snyder AZ, Adeyemo B, Petersen SE, Glahn DC, Reese Mckay D, Curran JE, Göring HH, Carless MA, Blangero J, Dougherty R, Leemans A, Handwerker DA, Frick L, Marcotte EM, Mumford JA | Nature communications | 26648521 | Nat Commun | 2015 Dec 9 | https://www.ncbi.nlm.nih.gov/pubmed/26648521 |
| Modes of interaction between individuals dominate the topologies of real world networks. | Lee I, Kim E, Marcotte EM | PloS one | 25793969 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25793969 |
| Classification of Single Particles from Human Cell Extract Reveals Distinct Structures. | Verbeke EJ, Mallam AL, Drew K, Marcotte EM, Taylor DW | Cell reports | 29972786 | Cell Rep | 2018 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/29972786 |
| Highly parallel single-molecule identification of proteins in zeptomole-scale mixtures. | Swaminathan J, Boulgakov AA, Hernandez ET, Bardo AM, Bachman JL, Marotta J, Johnson AM, Anslyn EV, Marcotte EM | Nature biotechnology | 30346938 | Nat Biotechnol | 2018 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/30346938 |
| A highly parallel strategy for storage of digital information in living cells. | Akhmetov A, Ellington AD, Marcotte EM | BMC biotechnology | 30333005 | BMC Biotechnol | 2018 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/30333005 |
| HumanNet v2: human gene networks for disease research. | Hwang S, Kim CY, Yang S, Kim E, Hart T, Marcotte EM, Lee I | Nucleic acids research | 30418591 | Nucleic Acids Res | 2019 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/30418591 |
| A liquid-like organelle at the root of motile ciliopathy. | Huizar RL, Lee C, Boulgakov AA, Horani A, Tu F, Marcotte EM, Brody SL, Wallingford JB | eLife | 30561330 | Elife | 2018 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/30561330 |
| Synthesis of Carboxy ATTO 647N Using Redox Cycling for Xanthone Access. | Bachman JL, Pavlich CI, Boley AJ, Marcotte EM, Anslyn EV | Organic letters | 31825225 | Org Lett | 2020 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/31825225 |
| Proteomic identification of monoclonal antibodies from serum. | Boutz DR, Horton AP, Wine Y, Lavinder JJ, Georgiou G, Marcotte EM | Analytical chemistry | 24684310 | Anal Chem | 2014 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/24684310 |
| A self-assembling lanthanide molecular nanoparticle for optical imaging. | Brown KA, Yang X, Schipper D, Hall JW, DePue LJ, Gnanam AJ, Arambula JF, Jones JN, Swaminathan J, Dieye Y, Vadivelu J, Chandler DJ, Marcotte EM, Sessler JL, Ehrlich LI, Jones RA | Dalton transactions (Cambridge, England : 2003) | 25512085 | Dalton Trans | 2015 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/25512085 |
| Protein-to-mRNA ratios are conserved between Pseudomonas aeruginosa strains. | Kwon T, Huse HK, Vogel C, Whiteley M, Marcotte EM | Journal of proteome research | 24742327 | J Proteome Res | 2014 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/24742327 |
| The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery. | Toriyama M, Lee C, Taylor SP, Duran I, Cohn DH, Bruel AL, Tabler JM, Drew K, Kelly MR, Kim S, Park TJ, Braun DA, Pierquin G, Biver A, Wagner K, Malfroot A, Panigrahi I, Franco B, Al-Lami HA, Yeung Y, Choi YJ, University of Washington Center for Mendelian Genomics, Duffourd Y, Faivre L, Rivière JB, Chen J, Liu KJ, Marcotte EM, Hildebrandt F, Thauvin-Robinet C, Krakow D, Jackson PK, Wallingford JB | Nature genetics | 27158779 | Nat Genet | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27158779 |
| Bringing Microscopy-By-Sequencing into View. | Boulgakov AA, Ellington AD, Marcotte EM | Trends in biotechnology | 31416630 | Trends Biotechnol | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31416630 |
| Methionine Mistranslation Bypasses the Restraint of the Genetic Code to Generate Mutant Proteins with Distinct Activities. | Wang X, Pan T | PLoS genetics | 26709516 | PLoS Genet | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26709516 |
| A dual fluorescent reporter for the investigation of methionine mistranslation in live cells. | Gomes AC, Kordala AJ, Strack R, Wang X, Geslain R, Delaney K, Clark WC, Keenan R, Pan T | RNA (New York, N.Y.) | 26729921 | RNA | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26729921 |
| My adventure in tRNA biology, so far. | Pan T | RNA (New York, N.Y.) | 25780201 | RNA | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25780201 |
| Misacylation of tRNA with methionine in Saccharomyces cerevisiae. | Wiltrout E, Goodenbour JM, Fréchin M, Pan T | Nucleic acids research | 22941646 | Nucleic Acids Res | 2012 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/22941646 |
| Selective Enzymatic Demethylation of N(2) ,N(2) -Dimethylguanosine in RNA and Its Application in High-Throughput tRNA Sequencing. | Dai Q, Zheng G, Schwartz MH, Clark WC, Pan T | Angewandte Chemie (International ed. in English) | 28371071 | Angew Chem Int Ed Engl | 2017 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/28371071 |
| Global tRNA misacylation induced by anaerobiosis and antibiotic exposure broadly increases stress resistance in Escherichia coli. | Schwartz MH, Waldbauer JR, Zhang L, Pan T | Nucleic acids research | 27672035 | Nucleic Acids Res | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/27672035 |
| Stress Response and Adaptation Mediated by Amino Acid Misincorporation during Protein Synthesis. | Wang X, Pan T | Advances in nutrition (Bethesda, Md.) | 27422514 | Adv Nutr | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27422514 |
| Function and origin of mistranslation in distinct cellular contexts. | Schwartz MH, Pan T | Critical reviews in biochemistry and molecular biology | 28075177 | Crit Rev Biochem Mol Biol | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28075177 |
| Codon optimality controls differential mRNA translation during amino acid starvation. | Saikia M, Wang X, Mao Y, Wan J, Pan T, Qian SB | RNA (New York, N.Y.) | 27613579 | RNA | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27613579 |
| Modifications and functional genomics of human transfer RNA. | Pan T | Cell research | 29463900 | Cell Res | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29463900 |
| tRNA Misacylation with Methionine in the Mouse Gut Microbiome in Situ. | Schwartz MH, Pan T | Microbial ecology | 28070678 | Microb Ecol | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28070678 |
| Determining the fidelity of tRNA aminoacylation via microarrays. | Schwartz MH, Pan T | Methods (San Diego, Calif.) | 27639882 | Methods | 2017 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/27639882 |
| N(6)-Methyladenosine Modification in a Long Noncoding RNA Hairpin Predisposes Its Conformation to Protein Binding. | Zhou KI, Parisien M, Dai Q, Liu N, Diatchenko L, Sachleben JR, Pan T | Journal of molecular biology | 26343757 | J Mol Biol | 2016 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/26343757 |
| Temperature dependent mistranslation in a hyperthermophile adapts proteins to lower temperatures. | Schwartz MH, Pan T | Nucleic acids research | 26657639 | Nucleic Acids Res | 2016 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/26657639 |
| Adaptive translation as a mechanism of stress response and adaptation. | Pan T | Annual review of genetics | 23988117 | Annu Rev Genet | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23988117 |
| Interaction of tRNA with MEK2 in pancreatic cancer cells. | Wang X, Chow CR, Ebine K, Lee J, Rosner MR, Pan T, Munshi HG | Scientific reports | 27301426 | Sci Rep | 2016 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/27301426 |
| Evolutionary Gain of Alanine Mischarging to Noncognate tRNAs with a G4:U69 Base Pair. | Sun L, Gomes AC, He W, Zhou H, Wang X, Pan DW, Schimmel P, Pan T, Yang XL | Journal of the American Chemical Society | 27622773 | J Am Chem Soc | 2016 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/27622773 |
| tRNA base methylation identification and quantification via high-throughput sequencing. | Clark WC, Evans ME, Dominissini D, Zheng G, Pan T | RNA (New York, N.Y.) | 27613580 | RNA | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27613580 |
| Efficient and quantitative high-throughput tRNA sequencing. | Zheng G, Qin Y, Clark WC, Dai Q, Yi C, He C, Lambowitz AM, Pan T | Nature methods | 26214130 | Nat Methods | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26214130 |
| Diversity of human tRNA genes from the 1000-genomes project. | Parisien M, Wang X, Pan T | RNA biology | 24448271 | RNA Biol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24448271 |
| Improving membrane protein expression by optimizing integration efficiency. | Niesen MJM, Marshall SS, Miller TF 3rd, Clemons WM Jr | The Journal of biological chemistry | 28918393 | J Biol Chem | 2017 Nov 24 | https://www.ncbi.nlm.nih.gov/pubmed/28918393 |
| Molecular basis of tail-anchored integral membrane protein recognition by the cochaperone Sgt2. | Lin KF, Fry MY, Saladi SM, Clemons WM Jr | The Journal of biological chemistry | 33610544 | J Biol Chem | 2021 Jan-Jun | https://www.ncbi.nlm.nih.gov/pubmed/33610544 |
| Sequence-based features that are determinant for tail-anchored membrane protein sorting in eukaryotes. | Fry MY, Saladi SM, Cunha A, Clemons WM Jr | Traffic (Copenhagen, Denmark) | 34288289 | Traffic | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/34288289 |
| Comprehensive proteomic profiling of outer membrane vesicles from Campylobacter jejuni. | Jang KS, Sweredoski MJ, Graham RL, Hess S, Clemons WM Jr | Journal of proteomics | 24382552 | J Proteomics | 2014 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/24382552 |
| Chemoenzymatic syntheses of water-soluble lipid I fluorescent probes. | Mitachi K, Siricilla S, Klaic L, Clemons WM Jr, Kurosu M | Tetrahedron letters | 26190869 | Tetrahedron Lett | 2015 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/26190869 |
| Structures of Get3d reveal a distinct architecture associated with the emergence of photosynthesis. | Barlow AN, Manu MS, Saladi SM, Tarr PT, Yadav Y, Thinn AMM, Zhu Y, Laganowsky AD, Clemons WM Jr, Ramasamy S | The Journal of biological chemistry | 37100288 | J Biol Chem | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37100288 |
| A cationic cysteine-hydrazide as an enrichment tool for the mass spectrometric characterization of bacterial free oligosaccharides. | Jang KS, Nani RR, Kalli A, Levin S, Müller A, Hess S, Reisman SE, Clemons WM Jr | Analytical and bioanalytical chemistry | 26100547 | Anal Bioanal Chem | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26100547 |
| A Link between Integral Membrane Protein Expression and Simulated Integration Efficiency. | Marshall SS, Niesen MJM, Müller A, Tiemann K, Saladi SM, Galimidi RP, Zhang B, Clemons WM Jr, Miller TF 3rd | Cell reports | 27524616 | Cell Rep | 2016 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/27524616 |
| The STI1-domain is a flexible alpha-helical fold with a hydrophobic groove. | Fry MY, Saladi SM, Clemons WM Jr | Protein science : a publication of the Protein Society | 33620121 | Protein Sci | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33620121 |
| A statistical model for improved membrane protein expression using sequence-derived features. | Saladi SM, Javed N, Müller A, Clemons WM Jr | The Journal of biological chemistry | 29378850 | J Biol Chem | 2018 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/29378850 |
| Structurally derived universal mechanism for the catalytic cycle of the tail-anchored targeting factor Get3. | Fry MY, Najdrová V, Maggiolo AO, Saladi SM, Doležal P, Clemons WM Jr | Nature structural & molecular biology | 35851188 | Nat Struct Mol Biol | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35851188 |
| Following the fate of one insulin-reactive CD4 T cell: conversion into Teffs and Tregs in the periphery controls diabetes in NOD mice. | Fousteri G, Jasinski J, Dave A, Nakayama M, Pagni P, Lambolez F, Juntti T, Sarikonda G, Cheng Y, Croft M, Cheroutre H, Eisenbarth G, von Herrath M | Diabetes.. | 22403296 | Diabetes | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22403296 |
| The checkpoint for agonist selection precedes conventional selection in human thymus. | Verstichel G, Vermijlen D, Martens L, Goetgeluk G, Brouwer M, Thiault N, Van Caeneghem Y, De Munter S, Weening K, Bonte S, Leclercq G, Taghon T, Kerre T, Saeys Y, Van Dorpe J, Cheroutre H, Vandekerckhove B | Science immunology | 28783686 | Sci Immunol | 2017 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/28783686 |
| Negative selection of self-reactive chicken B cells requires B cell receptor signaling and is independent of the bursal microenvironment. | Davani D, Pancer Z, Cheroutre H, Ratcliffe MJ | Journal of immunology (Baltimore, Md. : 1950) | 24516196 | J Immunol | 2014 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/24516196 |
| Reverse-correlation analysis of navigation dynamics in Drosophila larva using optogenetics. | Hernandez-Nunez L, Belina J, Klein M, Si G, Claus L, Carlson JR, Samuel AD | eLife | 25942453 | Elife | 2015 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/25942453 |
| An extrasynaptic GABAergic signal modulates a pattern of forward movement in Caenorhabditis elegans. | Shen Y, Wen Q, Liu H, Zhong C, Qin Y, Harris G, Kawano T, Wu M, Xu T, Samuel AD, Zhang Y | eLife | 27138642 | Elife | 2016 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/27138642 |
| The wiring diagram of a glomerular olfactory system. | Berck ME, Khandelwal A, Claus L, Hernandez-Nunez L, Si G, Tabone CJ, Li F, Truman JW, Fetter RD, Louis M, Samuel AD, Cardona A | eLife | 27177418 | Elife | 2016 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/27177418 |
| Functional diversity among sensory receptors in a Drosophila olfactory circuit. | Mathew D, Martelli C, Kelley-Swift E, Brusalis C, Gershow M, Samuel AD, Emonet T, Carlson JR | Proceedings of the National Academy of Sciences of the United States of America | 23690583 | Proc Natl Acad Sci U S A | 2013 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/23690583 |
| The Ionotropic Receptors IR21a and IR25a mediate cool sensing in Drosophila. | Ni L, Klein M, Svec KV, Budelli G, Chang EC, Ferrer AJ, Benton R, Samuel AD, Garrity PA | eLife | 27126188 | Elife | 2016 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/27126188 |
| Pan-neuronal imaging in roaming Caenorhabditis elegans. | Venkatachalam V, Ji N, Wang X, Clark C, Mitchell JK, Klein M, Tabone CJ, Florman J, Ji H, Greenwood J, Chisholm AD, Srinivasan J, Alkema M, Zhen M, Samuel AD | Proceedings of the National Academy of Sciences of the United States of America | 26711989 | Proc Natl Acad Sci U S A | 2016 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/26711989 |
| Structured Odorant Response Patterns across a Complete Olfactory Receptor Neuron Population. | Si G, Kanwal JK, Hu Y, Tabone CJ, Baron J, Berck M, Vignoud G, Samuel ADT | Neuron | 30683545 | Neuron | 2019 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/30683545 |
| Contrasting responses within a single neuron class enable sex-specific attraction in Caenorhabditis elegans. | Narayan A, Venkatachalam V, Durak O, Reilly DK, Bose N, Schroeder FC, Samuel AD, Srinivasan J, Sternberg PW | Proceedings of the National Academy of Sciences of the United States of America | 26903633 | Proc Natl Acad Sci U S A | 2016 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/26903633 |
| Sensorimotor structure of Drosophila larva phototaxis. | Kane EA, Gershow M, Afonso B, Larderet I, Klein M, Carter AR, de Bivort BL, Sprecher SG, Samuel AD | Proceedings of the National Academy of Sciences of the United States of America | 24043822 | Proc Natl Acad Sci U S A | 2013 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/24043822 |
| Controlling airborne cues to study small animal navigation. | Gershow M, Berck M, Mathew D, Luo L, Kane EA, Carlson JR, Samuel AD | Nature methods | 22245808 | Nat Methods | 2012 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/22245808 |
| Imaging whole nervous systems: insights into behavior from worms to fish. | Calarco JA, Samuel ADT | Nature methods | 30573822 | Nat Methods | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30573822 |
| Distinct combinations of variant ionotropic glutamate receptors mediate thermosensation and hygrosensation in Drosophila. | Knecht ZA, Silbering AF, Ni L, Klein M, Budelli G, Bell R, Abuin L, Ferrer AJ, Samuel AD, Benton R, Garrity PA | eLife | 27656904 | Elife | 2016 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/27656904 |
| Two alternating motor programs drive navigation in Drosophila larva. | Lahiri S, Shen K, Klein M, Tang A, Kane E, Gershow M, Garrity P, Samuel AD | PloS one | 21858019 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21858019 |
| Integration of Plasticity Mechanisms within a Single Sensory Neuron of C. elegans Actuates a Memory. | Hawk JD, Calvo AC, Liu P, Almoril-Porras A, Aljobeh A, Torruella-Suárez ML, Ren I, Cook N, Greenwood J, Luo L, Wang ZW, Samuel ADT, Colón-Ramos DA | Neuron | 29307713 | Neuron | 2018 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/29307713 |
| The power and promise of applying genomics to honey bee health. | Grozinger CM, Robinson GE | Current opinion in insect science | 26273565 | Curr Opin Insect Sci | 2015 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/26273565 |
| Nano-Bioelectronics. | Zhang A, Lieber CM | Chemical reviews | 26691648 | Chem Rev | 2016 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/26691648 |
| Multifunctional three-dimensional macroporous nanoelectronic networks for smart materials. | Liu J, Xie C, Dai X, Jin L, Zhou W, Lieber CM | Proceedings of the National Academy of Sciences of the United States of America | 23569270 | Proc Natl Acad Sci U S A | 2013 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/23569270 |
| Flexible electrical recording from cells using nanowire transistor arrays. | Cohen-Karni T, Timko BP, Weiss LE, Lieber CM | Proceedings of the National Academy of Sciences of the United States of America | 19365078 | Proc Natl Acad Sci U S A | 2009 May 5 | https://www.ncbi.nlm.nih.gov/pubmed/19365078 |
| Three-dimensional mapping and regulation of action potential propagation in nanoelectronics-innervated tissues. | Dai X, Zhou W, Gao T, Liu J, Lieber CM | Nature nanotechnology | 27347837 | Nat Nanotechnol | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27347837 |
| General strategy for biodetection in high ionic strength solutions using transistor-based nanoelectronic sensors. | Gao N, Zhou W, Jiang X, Hong G, Fu TM, Lieber CM | Nano letters | 25664395 | Nano Lett | 2015 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/25664395 |
| Syringe-injectable electronics. | Liu J, Fu TM, Cheng Z, Hong G, Zhou T, Jin L, Duvvuri M, Jiang Z, Kruskal P, Xie C, Suo Z, Fang Y, Lieber CM | Nature nanotechnology | 26053995 | Nat Nanotechnol | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26053995 |
| Long term stability of nanowire nanoelectronics in physiological environments. | Zhou W, Dai X, Fu TM, Xie C, Liu J, Lieber CM | Nano letters | 24479700 | Nano Lett | 2014 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/24479700 |
| CRISPR-Cas systems for editing, regulating and targeting genomes. | Sander JD, Joung JK | Nature biotechnology | 24584096 | Nat Biotechnol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24584096 |
| Hypoxia drives transient site-specific copy gain and drug-resistant gene expression. | Black JC, Atabakhsh E, Kim J, Biette KM, Van Rechem C, Ladd B, Burrowes PD, Donado C, Mattoo H, Kleinstiver BP, Song B, Andriani G, Joung JK, Iliopoulos O, Montagna C, Pillai S, Getz G, Whetstine JR | Genes & development | 25995187 | Genes Dev | 2015 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/25995187 |
| In silico abstraction of zinc finger nuclease cleavage profiles reveals an expanded landscape of off-target sites. | Sander JD, Ramirez CL, Linder SJ, Pattanayak V, Shoresh N, Ku M, Foden JA, Reyon D, Bernstein BE, Liu DR, Joung JK | Nucleic acids research | 23945932 | Nucleic Acids Res | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23945932 |
| IκB kinase β (IKBKB) mutations in lymphomas that constitutively activate canonical nuclear factor κB (NFκB) signaling. | Kai X, Chellappa V, Donado C, Reyon D, Sekigami Y, Ataca D, Louissaint A, Mattoo H, Joung JK, Pillai S | The Journal of biological chemistry | 25107905 | J Biol Chem | 2014 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/25107905 |
| Defining CRISPR-Cas9 genome-wide nuclease activities with CIRCLE-seq. | Lazzarotto CR, Nguyen NT, Tang X, Malagon-Lopez J, Guo JA, Aryee MJ, Joung JK, Tsai SQ | Nature protocols | 30341435 | Nat Protoc | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30341435 |
| TALENs: a widely applicable technology for targeted genome editing. | Joung JK, Sander JD | Nature reviews. Molecular cell biology | 23169466 | Nat Rev Mol Cell Biol | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23169466 |
| Efficient CRISPR/Cas9-mediated editing of trinucleotide repeat expansion in myotonic dystrophy patient-derived iPS and myogenic cells. | Dastidar S, Ardui S, Singh K, Majumdar D, Nair N, Fu Y, Reyon D, Samara E, Gerli MFM, Klein AF, De Schrijver W, Tipanee J, Seneca S, Tulalamba W, Wang H, Chai YC, In't Veld P, Furling D, Tedesco FS, Vermeesch JR, Joung JK, Chuah MK, VandenDriessche T | Nucleic acids research | 29947794 | Nucleic Acids Res | 2018 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/29947794 |
| High-frequency off-target mutagenesis induced by CRISPR-Cas nucleases in human cells. | Fu Y, Foden JA, Khayter C, Maeder ML, Reyon D, Joung JK, Sander JD | Nature biotechnology | 23792628 | Nat Biotechnol | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23792628 |
| Targeted deletion and inversion of tandemly arrayed genes in Arabidopsis thaliana using zinc finger nucleases. | Qi Y, Li X, Zhang Y, Starker CG, Baltes NJ, Zhang F, Sander JD, Reyon D, Joung JK, Voytas DF | G3 (Bethesda, Md.) | 23979943 | G3 (Bethesda) | 2013 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/23979943 |
| Targeted DNA demethylation and activation of endogenous genes using programmable TALE-TET1 fusion proteins. | Maeder ML, Angstman JF, Richardson ME, Linder SJ, Cascio VM, Tsai SQ, Ho QH, Sander JD, Reyon D, Bernstein BE, Costello JF, Wilkinson MF, Joung JK | Nature biotechnology | 24108092 | Nat Biotechnol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24108092 |
| CRISPR RNA-guided activation of endogenous human genes. | Maeder ML, Linder SJ, Cascio VM, Fu Y, Ho QH, Joung JK | Nature methods | 23892898 | Nat Methods | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23892898 |
| Broadening the targeting range of Staphylococcus aureus CRISPR-Cas9 by modifying PAM recognition. | Kleinstiver BP, Prew MS, Tsai SQ, Nguyen NT, Topkar VV, Zheng Z, Joung JK | Nature biotechnology | 26524662 | Nat Biotechnol | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26524662 |
| Continuous directed evolution of DNA-binding proteins to improve TALEN specificity. | Hubbard BP, Badran AH, Zuris JA, Guilinger JP, Davis KM, Chen L, Tsai SQ, Sander JD, Joung JK, Liu DR | Nature methods | 26258293 | Nat Methods | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26258293 |
| Context influences on TALE-DNA binding revealed by quantitative profiling. | Rogers JM, Barrera LA, Reyon D, Sander JD, Kellis M, Joung JK, Bulyk ML | Nature communications | 26067805 | Nat Commun | 2015 Jun 11 | https://www.ncbi.nlm.nih.gov/pubmed/26067805 |
| Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells. | Liao J, Karnik R, Gu H, Ziller MJ, Clement K, Tsankov AM, Akopian V, Gifford CA, Donaghey J, Galonska C, Pop R, Reyon D, Tsai SQ, Mallard W, Joung JK, Rinn JL, Gnirke A, Meissner A | Nature genetics | 25822089 | Nat Genet | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25822089 |
| A zebrafish model of myelodysplastic syndrome produced through tet2 genomic editing. | Gjini E, Mansour MR, Sander JD, Moritz N, Nguyen AT, Kesarsing M, Gans E, He S, Chen S, Ko M, Kuang YY, Yang S, Zhou Y, Rodig S, Zon LI, Joung JK, Rao A, Look AT | Molecular and cellular biology | 25512612 | Mol Cell Biol | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25512612 |
| Induction of stable drug resistance in human breast cancer cells using a combinatorial zinc finger transcription factor library. | Lee J, Hirsh AS, Wittner BS, Maeder ML, Singavarapu R, Lang M, Janarthanan S, McDermott U, Yajnik V, Ramaswamy S, Joung JK, Sgroi DC | PloS one | 21818254 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21818254 |
| Zinc-finger nucleases for somatic gene therapy: the next frontier. | Rahman SH, Maeder ML, Joung JK, Cathomen T | Human gene therapy | 21631241 | Hum Gene Ther | 2011 Aug | https://www.ncbi.nlm.nih.gov/pubmed/21631241 |
| Camptothecin resistance is determined by the regulation of topoisomerase I degradation mediated by ubiquitin proteasome pathway. | Ando K, Shah AK, Sachdev V, Kleinstiver BP, Taylor-Parker J, Welch MM, Hu Y, Salgia R, White FM, Parvin JD, Ozonoff A, Rameh LE, Joung JK, Bharti AK | Oncotarget | 28415827 | Oncotarget | 2017 Jul 4 | https://www.ncbi.nlm.nih.gov/pubmed/28415827 |
| CIRCLE-seq: a highly sensitive in vitro screen for genome-wide CRISPR-Cas9 nuclease off-targets. | Tsai SQ, Nguyen NT, Malagon-Lopez J, Topkar VV, Aryee MJ, Joung JK | Nature methods | 28459458 | Nat Methods | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28459458 |
| Engineered CRISPR-Cas9 nucleases with altered PAM specificities. | Kleinstiver BP, Prew MS, Tsai SQ, Topkar VV, Nguyen NT, Zheng Z, Gonzales AP, Li Z, Peterson RT, Yeh JR, Aryee MJ, Joung JK | Nature | 26098369 | Nature | 2015 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/26098369 |
| Locus-specific editing of histone modifications at endogenous enhancers. | Mendenhall EM, Williamson KE, Reyon D, Zou JY, Ram O, Joung JK, Bernstein BE | Nature biotechnology | 24013198 | Nat Biotechnol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24013198 |
| Dimeric CRISPR RNA-guided FokI nucleases for highly specific genome editing. | Tsai SQ, Wyvekens N, Khayter C, Foden JA, Thapar V, Reyon D, Goodwin MJ, Aryee MJ, Joung JK | Nature biotechnology | 24770325 | Nat Biotechnol | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24770325 |
| piggyBac transposase tools for genome engineering. | Li X, Burnight ER, Cooney AL, Malani N, Brady T, Sander JD, Staber J, Wheelan SJ, Joung JK, McCray PB Jr, Bushman FD, Sinn PL, Craig NL | Proceedings of the National Academy of Sciences of the United States of America | 23723351 | Proc Natl Acad Sci U S A | 2013 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/23723351 |
| Genome-wide specificities of CRISPR-Cas Cpf1 nucleases in human cells. | Kleinstiver BP, Tsai SQ, Prew MS, Nguyen NT, Welch MM, Lopez JM, McCaw ZR, Aryee MJ, Joung JK | Nature biotechnology | 27347757 | Nat Biotechnol | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27347757 |
| Defining genome-wide CRISPR-Cas genome-editing nuclease activity with GUIDE-seq. | Malinin NL, Lee G, Lazzarotto CR, Li Y, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Iafrate AJ, Le LP, Aryee MJ, Joung JK, Tsai SQ | Nature protocols | 34773119 | Nat Protoc | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34773119 |
| Functional analysis of Collagen 17a1: A genetic modifier of junctional epidermolysis bullosa in mice. | Sproule TJ, Wilpan RY, Low BE, Silva KA, Reyon D, Joung JK, Wiles MV, Roopenian DC, Sundberg JP | PloS one | 37796769 | PLoS One | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37796769 |
| Efficient genome editing in zebrafish using a CRISPR-Cas system. | Hwang WY, Fu Y, Reyon D, Maeder ML, Tsai SQ, Sander JD, Peterson RT, Yeh JR, Joung JK | Nature biotechnology | 23360964 | Nat Biotechnol | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23360964 |
| Interactome maps of mouse gene regulatory domains reveal basic principles of transcriptional regulation. | Kieffer-Kwon KR, Tang Z, Mathe E, Qian J, Sung MH, Li G, Resch W, Baek S, Pruett N, Grøntved L, Vian L, Nelson S, Zare H, Hakim O, Reyon D, Yamane A, Nakahashi H, Kovalchuk AL, Zou J, Joung JK, Sartorelli V, Wei CL, Ruan X, Hager GL, Ruan Y, Casellas R | Cell | 24360274 | Cell | 2013 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/24360274 |
| Improving CRISPR-Cas nuclease specificity using truncated guide RNAs. | Fu Y, Sander JD, Reyon D, Cascio VM, Joung JK | Nature biotechnology | 24463574 | Nat Biotechnol | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24463574 |
| Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage. | Hill SJ, Rolland T, Adelmant G, Xia X, Owen MS, Dricot A, Zack TI, Sahni N, Jacob Y, Hao T, McKinney KM, Clark AP, Reyon D, Tsai SQ, Joung JK, Beroukhim R, Marto JA, Vidal M, Gaudet S, Hill DE, Livingston DM | Genes & development | 25184681 | Genes Dev | 2014 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/25184681 |
| Genome Editing in Human Cells Using CRISPR/Cas Nucleases. | Wyvekens N, Tsai SQ, Joung JK | Current protocols in molecular biology | 26423589 | Curr Protoc Mol Biol | 2015 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/26423589 |
| Isocitrate Dehydrogenase Mutations Confer Dasatinib Hypersensitivity and SRC Dependence in Intrahepatic Cholangiocarcinoma. | Saha SK, Gordan JD, Kleinstiver BP, Vu P, Najem MS, Yeo JC, Shi L, Kato Y, Levin RS, Webber JT, Damon LJ, Egan RK, Greninger P, McDermott U, Garnett MJ, Jenkins RL, Rieger-Christ KM, Sullivan TB, Hezel AF, Liss AS, Mizukami Y, Goyal L, Ferrone CR, Zhu AX, Joung JK, Shokat KM, Benes CH, Bardeesy N | Cancer discovery | 27231123 | Cancer Discov | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27231123 |
| Defining and improving the genome-wide specificities of CRISPR-Cas9 nucleases. | Tsai SQ, Joung JK | Nature reviews. Genetics | 27087594 | Nat Rev Genet | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27087594 |
| Nodal patterning without Lefty inhibitory feedback is functional but fragile. | Rogers KW, Lord ND, Gagnon JA, Pauli A, Zimmerman S, Aksel DC, Reyon D, Tsai SQ, Joung JK, Schier AF | eLife | 29215332 | Elife | 2017 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/29215332 |
| High-fidelity CRISPR-Cas9 nucleases with no detectable genome-wide off-target effects. | Kleinstiver BP, Pattanayak V, Prew MS, Tsai SQ, Nguyen NT, Zheng Z, Joung JK | Nature | 26735016 | Nature | 2016 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/26735016 |
| GUIDE-seq enables genome-wide profiling of off-target cleavage by CRISPR-Cas nucleases. | Tsai SQ, Zheng Z, Nguyen NT, Liebers M, Topkar VV, Thapar V, Wyvekens N, Khayter C, Iafrate AJ, Le LP, Aryee MJ, Joung JK | Nature biotechnology | 25513782 | Nat Biotechnol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25513782 |
| Broad specificity profiling of TALENs results in engineered nucleases with improved DNA-cleavage specificity. | Guilinger JP, Pattanayak V, Reyon D, Tsai SQ, Sander JD, Joung JK, Liu DR | Nature methods | 24531420 | Nat Methods | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24531420 |
| Novel synthetic Medea selfish genetic elements drive population replacement in Drosophila; a theoretical exploration of Medea-dependent population suppression. | Akbari OS, Chen CH, Marshall JM, Huang H, Antoshechkin I, Hay BA | ACS synthetic biology | 23654248 | ACS Synth Biol | 2014 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/23654248 |
| Inertial imaging with nanomechanical systems. | Hanay MS, Kelber SI, O'Connell CD, Mulvaney P, Sader JE, Roukes ML | Nature nanotechnology | 25822931 | Nat Nanotechnol | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25822931 |
| Neutral particle mass spectrometry with nanomechanical systems. | Sage E, Brenac A, Alava T, Morel R, Dupré C, Hanay MS, Roukes ML, Duraffourg L, Masselon C, Hentz S | Nature communications | 25753929 | Nat Commun | 2015 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/25753929 |
| The brain activity map project and the challenge of functional connectomics. | Alivisatos AP, Chun M, Church GM, Greenspan RJ, Roukes ML, Yuste R | Neuron | 22726828 | Neuron | 2012 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/22726828 |
| Vapor sensing characteristics of nanoelectromechanical chemical sensors functionalized using surface-initiated polymerization. | McCaig HC, Myers E, Lewis NS, Roukes ML | Nano letters | 24922358 | Nano Lett | 2014 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/24922358 |
| Neuroscience. The brain activity map. | Alivisatos AP, Chun M, Church GM, Deisseroth K, Donoghue JP, Greenspan RJ, McEuen PL, Roukes ML, Sejnowski TJ, Weiss PS, Yuste R | Science (New York, N.Y.) | 23470729 | Science | 2013 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/23470729 |
| Patterned photostimulation via visible-wavelength photonic probes for deep brain optogenetics. | Segev E, Reimer J, Moreaux LC, Fowler TM, Chi D, Sacher WD, Lo M, Deisseroth K, Tolias AS, Faraon A, Roukes ML | Neurophotonics | 27990451 | Neurophotonics | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27990451 |
| Single-protein nanomechanical mass spectrometry in real time. | Hanay MS, Kelber S, Naik AK, Chi D, Hentz S, Bullard EC, Colinet E, Duraffourg L, Roukes ML | Nature nanotechnology | 22922541 | Nat Nanotechnol | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22922541 |
| A National Network of Neurotechnology Centers for the BRAIN Initiative. | Alivisatos AP, Chun M, Church GM, Greenspan RJ, Roukes ML, Yuste R | Neuron | 26481036 | Neuron | 2015 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/26481036 |
| Nanotools for neuroscience and brain activity mapping. | Alivisatos AP, Andrews AM, Boyden ES, Chun M, Church GM, Deisseroth K, Donoghue JP, Fraser SE, Lippincott-Schwartz J, Looger LL, Masmanidis S, McEuen PL, Nurmikko AV, Park H, Peterka DS, Reid C, Roukes ML, Scherer A, Schnitzer M, Sejnowski TJ, Shepard KL, Tsao D, Turrigiano G, Weiss PS, Xu C, Yuste R, Zhuang X | ACS nano | 23514423 | ACS Nano | 2013 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/23514423 |
| Frequency fluctuations in silicon nanoresonators. | Sansa M, Sage E, Bullard EC, Gély M, Alava T, Colinet E, Naik AK, Villanueva LG, Duraffourg L, Roukes ML, Jourdan G, Hentz S | Nature nanotechnology | 26925826 | Nat Nanotechnol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26925826 |
| Retrosplenial inputs drive diverse visual representations in the medial entorhinal cortex. | Dubanet O, Higley MJ | bioRxiv : the preprint server for biology | 37873152 | bioRxiv | 2023 Oct 4 | https://www.ncbi.nlm.nih.gov/pubmed/37873152 |
| Spatiotemporally heterogeneous coordination of cholinergic and neocortical activity. | Lohani S, Moberly AH, Benisty H, Landa B, Jing M, Li Y, Higley MJ, Cardin JA | Nature neuroscience | 36443609 | Nat Neurosci | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36443609 |
| The Cousa objective: a long-working distance air objective for multiphoton imaging in vivo. | Yu CH, Yu Y, Adsit LM, Chang JT, Barchini J, Moberly AH, Benisty H, Kim J, Young BK, Heng K, Farinella DM, Leikvoll A, Pavan R, Vistein R, Nanfito BR, Hildebrand DGC, Otero-Coronel S, Vaziri A, Goldberg JL, Ricci AJ, Fitzpatrick D, Cardin JA, Higley MJ, Smith GB, Kara P, Nielsen KJ, Smith IT, Smith SL | Nature methods | 38129618 | Nat Methods | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38129618 |
| Spatiotemporal dynamics in large-scale cortical networks. | Higley MJ, Cardin JA | Current opinion in neurobiology | 36115252 | Curr Opin Neurobiol | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36115252 |
| Developmental trajectory of cortical somatostatin interneuron function. | Wang A, Ferguson KA, Gupta J, Higley MJ, Cardin JA | bioRxiv : the preprint server for biology | 38496673 | bioRxiv | 2024 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/38496673 |
| Rapid fluctuations in functional connectivity of cortical networks encode spontaneous behavior. | Benisty H, Barson D, Moberly AH, Lohani S, Tang L, Coifman RR, Crair MC, Mishne G, Cardin JA, Higley MJ | Nature neuroscience | 38036743 | Nat Neurosci | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38036743 |
| Retrosplenial inputs drive visual representations in the medial entorhinal cortex. | Dubanet O, Higley MJ | Cell reports | 38985682 | Cell Rep | 2024 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/38985682 |
| Overproduction of Neurons Is Correlated with Enhanced Cortical Ensembles and Increased Perceptual Discrimination. | Fang WQ, Yuste R | Cell reports | 29020625 | Cell Rep | 2017 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/29020625 |
| Simultaneous two-photon imaging and two-photon optogenetics of cortical circuits in three dimensions. | Yang W, Carrillo-Reid L, Bando Y, Peterka DS, Yuste R | eLife | 29412138 | Elife | 2018 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/29412138 |
| Cooperative Subnetworks of Molecularly Similar Interneurons in Mouse Neocortex. | Karnani MM, Jackson J, Ayzenshtat I, Tucciarone J, Manoocheri K, Snider WG, Yuste R | Neuron | 27021171 | Neuron | 2016 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/27021171 |
| Spatial distribution of neurons innervated by chandelier cells. | Blazquez-Llorca L, Woodruff A, Inan M, Anderson SA, Yuste R, DeFelipe J, Merchan-Perez A | Brain structure & function | 25056931 | Brain Struct Funct | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25056931 |
| A miniaturized multi-clamp CMOS amplifier for intracellular neural recording. | Shekar S, Jayant K, Rabadan MA, Tomer R, Yuste R, Shepard KL | Nature electronics | 31850397 | Nat Electron | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31850397 |
| Non-overlapping Neural Networks in Hydra vulgaris. | Dupre C, Yuste R | Current biology : CB | 28366745 | Curr Biol | 2017 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/28366745 |
| Imaging and Optically Manipulating Neuronal Ensembles. | Carrillo-Reid L, Yang W, Kang Miller JE, Peterka DS, Yuste R | Annual review of biophysics | 28301770 | Annu Rev Biophys | 2017 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/28301770 |
| A blanket of inhibition: functional inferences from dense inhibitory connectivity. | Karnani MM, Agetsuma M, Yuste R | Current opinion in neurobiology | 24440415 | Curr Opin Neurobiol | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24440415 |
| Calcium imaging of neural circuits with extended depth-of-field light-sheet microscopy. | Quirin S, Vladimirov N, Yang CT, Peterka DS, Yuste R, Ahrens MB | Optics letters | 26974063 | Opt Lett | 2016 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/26974063 |
| Instantaneous three-dimensional sensing using spatial light modulator illumination with extended depth of field imaging. | Quirin S, Peterka DS, Yuste R | Optics express | 23842387 | Opt Express | 2013 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/23842387 |
| Acute Focal Seizures Start As Local Synchronizations of Neuronal Ensembles. | Wenzel M, Hamm JP, Peterka DS, Yuste R | The Journal of neuroscience : the official journal of the Society for Neuroscience | 31427393 | J Neurosci | 2019 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/31427393 |
| Reliable and Elastic Propagation of Cortical Seizures In Vivo. | Wenzel M, Hamm JP, Peterka DS, Yuste R | Cell reports | 28658617 | Cell Rep | 2017 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/28658617 |
| Two-Color Volumetric Imaging of Neuronal Activity of Cortical Columns. | Han S, Yang W, Yuste R | Cell reports | 31091458 | Cell Rep | 2019 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/31091458 |
| Opening Holes in the Blanket of Inhibition: Localized Lateral Disinhibition by VIP Interneurons. | Karnani MM, Jackson J, Ayzenshtat I, Hamzehei Sichani A, Manoocheri K, Kim S, Yuste R | The Journal of neuroscience : the official journal of the Society for Neuroscience | 27013676 | J Neurosci | 2016 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/27013676 |
| moco: Fast Motion Correction for Calcium Imaging. | Dubbs A, Guevara J, Yuste R | Frontiers in neuroinformatics | 26909035 | Front Neuroinform | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26909035 |
| Light sheet theta microscopy for rapid high-resolution imaging of large biological samples. | Migliori B, Datta MS, Dupre C, Apak MC, Asano S, Gao R, Boyden ES, Hermanson O, Yuste R, Tomer R | BMC biology | 29843722 | BMC Biol | 2018 May 29 | https://www.ncbi.nlm.nih.gov/pubmed/29843722 |
| Parvalbumin-Positive Interneurons Regulate Neuronal Ensembles in Visual Cortex. | Agetsuma M, Hamm JP, Tao K, Fujisawa S, Yuste R | Cerebral cortex (New York, N.Y. : 1991) | 29106504 | Cereb Cortex | 2018 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/29106504 |
| Orientation Tuning Depends on Spatial Frequency in Mouse Visual Cortex. | Ayzenshtat I, Jackson J, Yuste R | eNeuro | 27699210 | eNeuro | 2016 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/27699210 |
| Cortical Control of Spatial Resolution by VIP+ Interneurons. | Ayzenshtat I, Karnani MM, Jackson J, Yuste R | The Journal of neuroscience : the official journal of the Society for Neuroscience | 27911754 | J Neurosci | 2016 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/27911754 |
| Genetic voltage indicators. | Bando Y, Grimm C, Cornejo VH, Yuste R | BMC biology | 31514747 | BMC Biol | 2019 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/31514747 |
| Neocortical activity is stimulus- and scale-invariant. | Karimipanah Y, Ma Z, Miller JK, Yuste R, Wessel R | PloS one | 28489906 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28489906 |
| Super-multiplex vibrational imaging. | Wei L, Chen Z, Shi L, Long R, Anzalone AV, Zhang L, Hu F, Yuste R, Cornish VW, Min W | Nature | 28424513 | Nature | 2017 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/28424513 |
| Two-Photon Optogenetic Mapping of Excitatory Synaptic Connectivity and Strength. | Izquierdo-Serra M, Hirtz JJ, Shababo B, Yuste R | iScience | 30268510 | iScience | 2018 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/30268510 |
| Back to the Basics: Cnidarians Start to Fire. | Bosch TCG, Klimovich A, Domazet-Lošo T, Gründer S, Holstein TW, Jékely G, Miller DJ, Murillo-Rincon AP, Rentzsch F, Richards GS, Schröder K, Technau U, Yuste R | Trends in neurosciences | 28041633 | Trends Neurosci | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28041633 |
| Simultaneous Denoising, Deconvolution, and Demixing of Calcium Imaging Data. | Pnevmatikakis EA, Soudry D, Gao Y, Machado TA, Merel J, Pfau D, Reardon T, Mu Y, Lacefield C, Yang W, Ahrens M, Bruno R, Jessell TM, Peterka DS, Yuste R, Paninski L | Neuron | 26774160 | Neuron | 2016 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/26774160 |
| Two-photon neuronal and astrocytic stimulation with azobenzene-based photoswitches. | Izquierdo-Serra M, Gascón-Moya M, Hirtz JJ, Pittolo S, Poskanzer KE, Ferrer È, Alibés R, Busqué F, Yuste R, Hernando J, Gorostiza P | Journal of the American Chemical Society | 24857186 | J Am Chem Soc | 2014 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/24857186 |
| In vivo imaging of neural activity. | Yang W, Yuste R | Nature methods | 28362436 | Nat Methods | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28362436 |
| Role of inhibitory control in modulating focal seizure spread. | Liou JY, Ma H, Wenzel M, Zhao M, Baird-Daniel E, Smith EH, Daniel A, Emerson R, Yuste R, Schwartz TH, Schevon CA | Brain : a journal of neurology | 29757347 | Brain | 2018 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/29757347 |
| Imprinting and recalling cortical ensembles. | Carrillo-Reid L, Yang W, Bando Y, Peterka DS, Yuste R | Science (New York, N.Y.) | 27516599 | Science | 2016 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/27516599 |
| Multi-scale approaches for high-speed imaging and analysis of large neural populations. | Friedrich J, Yang W, Soudry D, Mu Y, Ahrens MB, Yuste R, Peterka DS, Paninski L | PLoS computational biology | 28771570 | PLoS Comput Biol | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28771570 |
| Flexible Nanopipettes for Minimally Invasive Intracellular Electrophysiology In Vivo. | Jayant K, Wenzel M, Bando Y, Hamm JP, Mandriota N, Rabinowitz JH, Plante IJ, Owen JS, Sahin O, Shepard KL, Yuste R | Cell reports | 30605681 | Cell Rep | 2019 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/30605681 |
| Reduced Repertoire of Cortical Microstates and Neuronal Ensembles in Medically Induced Loss of Consciousness. | Wenzel M, Han S, Smith EH, Hoel E, Greger B, House PA, Yuste R | Cell systems | 31054810 | Cell Syst | 2019 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/31054810 |
| Controlling Visually Guided Behavior by Holographic Recalling of Cortical Ensembles. | Carrillo-Reid L, Han S, Yang W, Akrouh A, Yuste R | Cell | 31257030 | Cell | 2019 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/31257030 |
| Neuroscience thinks big (and collaboratively). | Kandel ER, Markram H, Matthews PM, Yuste R, Koch C | Nature reviews. Neuroscience | 23958663 | Nat Rev Neurosci | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23958663 |
| Optical triggered seizures using a caged 4-Aminopyridine. | Zhao M, McGarry LM, Ma H, Harris S, Berwick J, Yuste R, Schwartz TH | Frontiers in neuroscience | 25698919 | Front Neurosci | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25698919 |
| The new century of the brain. | Yuste R, Church GM | Scientific American | 24660326 | Sci Am | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24660326 |
| Somatostatin Interneurons Control a Key Component of Mismatch Negativity in Mouse Visual Cortex. | Hamm JP, Yuste R | Cell reports | 27396334 | Cell Rep | 2016 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/27396334 |
| VIP+ interneurons control neocortical activity across brain states. | Jackson J, Ayzenshtat I, Karnani MM, Yuste R | Journal of neurophysiology | 26961109 | J Neurophysiol | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/26961109 |
| Simultaneous Multi-plane Imaging of Neural Circuits. | Yang W, Miller JE, Carrillo-Reid L, Pnevmatikakis E, Paninski L, Yuste R, Peterka DS | Neuron | 26774159 | Neuron | 2016 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/26774159 |
| Temporal dynamics in fMRI resting-state activity. | Yuste R, Fairhall AL | Proceedings of the National Academy of Sciences of the United States of America | 25902550 | Proc Natl Acad Sci U S A | 2015 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/25902550 |
| From the neuron doctrine to neural networks. | Yuste R | Nature reviews. Neuroscience | 26152865 | Nat Rev Neurosci | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26152865 |
| Endogenous sequential cortical activity evoked by visual stimuli. | Carrillo-Reid L, Miller JE, Hamm JP, Jackson J, Yuste R | The Journal of neuroscience : the official journal of the Society for Neuroscience | 26063915 | J Neurosci | 2015 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/26063915 |
| Holographic imaging and photostimulation of neural activity. | Yang W, Yuste R | Current opinion in neurobiology | 29660600 | Curr Opin Neurobiol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29660600 |
| Comparative Evaluation of Genetically Encoded Voltage Indicators. | Bando Y, Sakamoto M, Kim S, Ayzenshtat I, Yuste R | Cell reports | 30650368 | Cell Rep | 2019 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/30650368 |
| Neuronal photoactivation through second-harmonic near-infrared absorption by gold nanoparticles. | de Boer WDAM, Hirtz JJ, Capretti A, Gregorkiewicz T, Izquierdo-Serra M, Han S, Dupre C, Shymkiv Y, Yuste R | Light, science & applications | 30534369 | Light Sci Appl | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30534369 |
| Brain maps at the nanoscale. | Yang W, Yuste R | Nature biotechnology | 30872818 | Nat Biotechnol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30872818 |
| Engineering a genetically-encoded SHG chromophore by electrostatic targeting to the membrane. | Jinno Y, Shoda K, Rial-Verde E, Yuste R, Miyawaki A, Tsutsui H | Frontiers in molecular neuroscience | 25505870 | Front Mol Neurosci | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25505870 |
| Simultaneous imaging of neural activity in three dimensions. | Quirin S, Jackson J, Peterka DS, Yuste R | Frontiers in neural circuits | 24772066 | Front Neural Circuits | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24772066 |
| Glial Calcium Waves are Triggered by Seizure Activity and Not Essential for Initiating Ictal Onset or Neurovascular Coupling. | Baird-Daniel E, Daniel AGS, Wenzel M, Li D, Liou JY, Laffont P, Zhao M, Yuste R, Ma H, Schwartz TH | Cerebral cortex (New York, N.Y. : 1991) | 28369176 | Cereb Cortex | 2017 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/28369176 |
| Altered Cortical Ensembles in Mouse Models of Schizophrenia. | Hamm JP, Peterka DS, Gogos JA, Yuste R | Neuron | 28384469 | Neuron | 2017 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/28384469 |
| Differential targeting of feline photoreceptors by recombinant adeno-associated viral vectors: implications for preclinical gene therapy trials. | Minella AL, Mowat FM, Willett KL, Sledge D, Bartoe JT, Bennett J, Petersen-Jones SM | Gene therapy | 25056608 | Gene Ther | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25056608 |
| Gene therapy restores auditory and vestibular function in a mouse model of Usher syndrome type 1c. | Pan B, Askew C, Galvin A, Heman-Ackah S, Asai Y, Indzhykulian AA, Jodelka FM, Hastings ML, Lentz JJ, Vandenberghe LH, Holt JR, Géléoc GS | Nature biotechnology | 28165476 | Nat Biotechnol | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28165476 |
| AAV2.7m8 is a powerful viral vector for inner ear gene therapy. | Isgrig K, McDougald DS, Zhu J, Wang HJ, Bennett J, Chien WW | Nature communications | 30683875 | Nat Commun | 2019 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/30683875 |
| Amelioration of Neurosensory Structure and Function in Animal and Cellular Models of a Congenital Blindness. | Song JY, Aravand P, Nikonov S, Leo L, Lyubarsky A, Bennicelli JL, Pan J, Wei Z, Shpylchak I, Herrera P, Bennett DJ, Commins N, Maguire AM, Pham J, den Hollander AI, Cremers FPM, Koenekoop RK, Roepman R, Nishina P, Zhou S, Pan W, Ying GS, Aleman TS, de Melo J, McNamara I, Sun J, Mills J, Bennett J | Molecular therapy : the journal of the American Society of Gene Therapy | 29673930 | Mol Ther | 2018 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/29673930 |
| Safety and durability of effect of contralateral-eye administration of AAV2 gene therapy in patients with childhood-onset blindness caused by RPE65 mutations: a follow-on phase 1 trial. | Bennett J, Wellman J, Marshall KA, McCague S, Ashtari M, DiStefano-Pappas J, Elci OU, Chung DC, Sun J, Wright JF, Cross DR, Aravand P, Cyckowski LL, Bennicelli JL, Mingozzi F, Auricchio A, Pierce EA, Ruggiero J, Leroy BP, Simonelli F, High KA, Maguire AM | Lancet (London, England) | 27375040 | Lancet | 2016 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/27375040 |
| Plasticity of the human visual system after retinal gene therapy in patients with Leber's congenital amaurosis. | Ashtari M, Zhang H, Cook PA, Cyckowski LL, Shindler KS, Marshall KA, Aravand P, Vossough A, Gee JC, Maguire AM, Baker CI, Bennett J | Science translational medicine | 26180100 | Sci Transl Med | 2015 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/26180100 |
| Disruption of CEP290 microtubule/membrane-binding domains causes retinal degeneration. | Drivas TG, Holzbaur EL, Bennett J | The Journal of clinical investigation | 24051377 | J Clin Invest | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24051377 |
| Novel mobility test to assess functional vision in patients with inherited retinal dystrophies. | Chung DC, McCague S, Yu ZF, Thill S, DiStefano-Pappas J, Bennett J, Cross D, Marshall K, Wellman J, High KA | Clinical & experimental ophthalmology | 28697537 | Clin Exp Ophthalmol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28697537 |
| Evaluating Efficiencies of Dual AAV Approaches for Retinal Targeting. | Carvalho LS, Turunen HT, Wassmer SJ, Luna-Velez MV, Xiao R, Bennett J, Vandenberghe LH | Frontiers in neuroscience | 28943836 | Front Neurosci | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28943836 |
| Efficacy and safety of voretigene neparvovec (AAV2-hRPE65v2) in patients with RPE65-mediated inherited retinal dystrophy: a randomised, controlled, open-label, phase 3 trial. | Russell S, Bennett J, Wellman JA, Chung DC, Yu ZF, Tillman A, Wittes J, Pappas J, Elci O, McCague S, Cross D, Marshall KA, Walshire J, Kehoe TL, Reichert H, Davis M, Raffini L, George LA, Hudson FP, Dingfield L, Zhu X, Haller JA, Sohn EH, Mahajan VB, Pfeifer W, Weckmann M, Johnson C, Gewaily D, Drack A, Stone E, Wachtel K, Simonelli F, Leroy BP, Wright JF, High KA, Maguire AM | Lancet (London, England) | 28712537 | Lancet | 2017 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/28712537 |
| Exploiting metabolic and antioxidant pathways to maintain vision in blinding disease. | Ramachandran PS, Song JY, Bennett J | The Journal of clinical investigation | 25798615 | J Clin Invest | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25798615 |
| Taking Stock of Retinal Gene Therapy: Looking Back and Moving Forward. | Bennett J | Molecular therapy : the journal of the American Society of Gene Therapy | 28391961 | Mol Ther | 2017 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/28391961 |
| Progress in gene therapy for neurological disorders. | Simonato M, Bennett J, Boulis NM, Castro MG, Fink DJ, Goins WF, Gray SJ, Lowenstein PR, Vandenberghe LH, Wilson TJ, Wolfe JH, Glorioso JC | Nature reviews. Neurology | 23609618 | Nat Rev Neurol | 2013 May | https://www.ncbi.nlm.nih.gov/pubmed/23609618 |
| An Autogenously Regulated Expression System for Gene Therapeutic Ocular Applications. | Sochor MA, Vasireddy V, Drivas TG, Wojno A, Doung T, Shpylchak I, Bennicelli J, Chung D, Bennett J, Lewis M | Scientific reports | 26597678 | Sci Rep | 2015 Nov 24 | https://www.ncbi.nlm.nih.gov/pubmed/26597678 |
| Immunology of AAV-Mediated Gene Transfer in the Eye. | Willett K, Bennett J | Frontiers in immunology | 24009613 | Front Immunol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24009613 |
| Institutional Conflict of Interest. | Bennett J | JAMA ophthalmology | 27583791 | JAMA Ophthalmol | 2016 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/27583791 |
| Evaluation of Dose and Safety of AAV7m8 and AAV8BP2 in the Non-Human Primate Retina. | Ramachandran PS, Lee V, Wei Z, Song JY, Casal G, Cronin T, Willett K, Huckfeldt R, Morgan JI, Aleman TS, Maguire AM, Bennett J | Human gene therapy | 27750461 | Hum Gene Ther | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27750461 |
| Synthetic Adeno-Associated Viral Vector Efficiently Targets Mouse and Nonhuman Primate Retina In Vivo. | Carvalho LS, Xiao R, Wassmer SJ, Langsdorf A, Zinn E, Pacouret S, Shah S, Comander JI, Kim LA, Lim L, Vandenberghe LH | Human gene therapy | 29325457 | Hum Gene Ther | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29325457 |
| AAV8BP2 and AAV8 transduce the mammalian cochlear lateral wall and endolymphatic sac with high efficiency. | Isgrig K, Ishibashi Y, Lee HJ, Zhu J, Grati M, Bennett J, Griffith AJ, Roux I, Chien WW | Molecular therapy. Methods & clinical development | 36034771 | Mol Ther Methods Clin Dev | 2022 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/36034771 |
| Single stranded adeno-associated virus achieves efficient gene transfer to anterior segment in the mouse eye. | Wang L, Xiao R, Andres-Mateos E, Vandenberghe LH | PloS one | 28763501 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28763501 |
| fMRI of retina-originated phosphenes experienced by patients with Leber congenital amaurosis. | Ashtari M, Cyckowski L, Yazdi A, Viands A, Marshall K, Bókkon I, Maguire A, Bennett J | PloS one | 24465873 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24465873 |
| Exosome-associated AAV2 vector mediates robust gene delivery into the murine retina upon intravitreal injection. | Wassmer SJ, Carvalho LS, György B, Vandenberghe LH, Maguire CA | Scientific reports | 28361998 | Sci Rep | 2017 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/28361998 |
| Gene Therapy and Stem Cell Transplantation in Retinal Disease: The New Frontier. | MacLaren RE, Bennett J, Schwartz SD | Ophthalmology | 27664291 | Ophthalmology | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27664291 |
| Refining surgical techniques for efficient posterior semicircular canal gene delivery in the adult mammalian inner ear with minimal hearing loss. | Zhu J, Choi JW, Ishibashi Y, Isgrig K, Grati M, Bennett J, Chien W | Scientific reports | 34552193 | Sci Rep | 2021 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/34552193 |
| The effect of noise correlations in populations of diversely tuned neurons. | Ecker AS, Berens P, Tolias AS, Bethge M | The Journal of neuroscience : the official journal of the Society for Neuroscience | 21976512 | J Neurosci | 2011 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/21976512 |
| Three-dimensional mapping of microcircuit correlation structure. | Cotton RJ, Froudarakis E, Storer P, Saggau P, Tolias AS | Frontiers in neural circuits | 24133414 | Front Neural Circuits | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24133414 |
| Community-based benchmarking improves spike rate inference from two-photon calcium imaging data. | Berens P, Freeman J, Deneux T, Chenkov N, McColgan T, Speiser A, Macke JH, Turaga SC, Mineault P, Rupprecht P, Gerhard S, Friedrich RW, Friedrich J, Paninski L, Pachitariu M, Harris KD, Bolte B, Machado TA, Ringach D, Stone J, Rogerson LE, Sofroniew NJ, Reimer J, Froudarakis E, Euler T, Román Rosón M, Theis L, Tolias AS, Bethge M | PLoS computational biology | 29782491 | PLoS Comput Biol | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29782491 |
| State dependence of noise correlations in macaque primary visual cortex. | Ecker AS, Berens P, Cotton RJ, Subramaniyan M, Denfield GH, Cadwell CR, Smirnakis SM, Bethge M, Tolias AS | Neuron | 24698278 | Neuron | 2014 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/24698278 |
| Integrated Neurophotonics: Toward Dense Volumetric Interrogation of Brain Circuit Activity-at Depth and in Real Time. | Moreaux LC, Yatsenko D, Sacher WD, Choi J, Lee C, Kubat NJ, Cotton RJ, Boyden ES, Lin MZ, Tian L, Tolias AS, Poon JKS, Shepard KL, Roukes ML | Neuron | 33058767 | Neuron | 2020 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/33058767 |
| Developmental broadening of inhibitory sensory maps. | Quast KB, Ung K, Froudarakis E, Huang L, Herman I, Addison AP, Ortiz-Guzman J, Cordiner K, Saggau P, Tolias AS, Arenkiel BR | Nature neuroscience | 28024159 | Nat Neurosci | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28024159 |
| A neural basis of probabilistic computation in visual cortex. | Walker EY, Cotton RJ, Ma WJ, Tolias AS | Nature neuroscience | 31873286 | Nat Neurosci | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31873286 |
| Macaque monkeys perceive the flash lag illusion. | Subramaniyan M, Ecker AS, Berens P, Tolias AS | PloS one | 23527024 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23527024 |
| Spike sorting for large, dense electrode arrays. | Rossant C, Kadir SN, Goodman DFM, Schulman J, Hunter MLD, Saleem AB, Grosmark A, Belluscio M, Denfield GH, Ecker AS, Tolias AS, Solomon S, Buzsaki G, Carandini M, Harris KD | Nature neuroscience | 26974951 | Nat Neurosci | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26974951 |
| Facilitators and barriers to healthy eating in a worksite cafeteria: a qualitative study from Nepal. | Shrestha A, Pyakurel P, Shrestha A, Gautam R, Manandhar N, Rhodes E, Tamrakar D, Karmacharya BM, Malik V, Mattei J, Spiegelman D | Heart Asia | 29225703 | Heart Asia | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29225703 |
| Estimating the natural indirect effect and the mediation proportion via the product method. | Cheng C, Spiegelman D, Li F | BMC medical research methodology | 34800985 | BMC Med Res Methodol | 2021 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/34800985 |
| Health system measurement: Harnessing machine learning to advance global health. | Leslie HH, Zhou X, Spiegelman D, Kruk ME | PloS one | 30289935 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30289935 |
| There is no impact of exposure measurement error on latency estimation in linear models. | Peskoe SB, Spiegelman D, Wang M | Statistics in medicine | 30515870 | Stat Med | 2019 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/30515870 |
| Service readiness of health facilities in Bangladesh, Haiti, Kenya, Malawi, Namibia, Nepal, Rwanda, Senegal, Uganda and the United Republic of Tanzania. | Leslie HH, Spiegelman D, Zhou X, Kruk ME | Bulletin of the World Health Organization | 29147054 | Bull World Health Organ | 2017 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/29147054 |
| Comparison of HPV-16 and HPV-18 Genotyping and Cytological Testing as Triage Testing Within Human Papillomavirus-Based Screening in Mexico. | Torres-Ibarra L, Cuzick J, Lorincz AT, Spiegelman D, Lazcano-Ponce E, Franco EL, Moscicki AB, Mahmud SM, Wheeler CM, Rivera-Paredez B, Hernández-López R, León-Maldonado L, Salmerón J, FRIDA Study Group. | JAMA network open | 31747033 | JAMA Netw Open | 2019 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/31747033 |
| The fidelity of implementation of recommended care for children with malaria by community health workers in Nigeria. | Adeoti O, Spiegelman D, Afonne C, Falade CO, Jegede AS, Oshiname FO, Gomes M, Ajayi IO | Implementation science : IS | 32131852 | Implement Sci | 2020 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/32131852 |
| A note on "Design and analysis of stepped wedge cluster randomized trials". | Liao X, Zhou X, Spiegelman D | Contemporary clinical trials | 26394003 | Contemp Clin Trials | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26394003 |
| Evaluating Public Health Interventions: 5. Causal Inference in Public Health Research-Do Sex, Race, and Biological Factors Cause Health Outcomes? | Glymour MM, Spiegelman D | American journal of public health | 27854526 | Am J Public Health | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27854526 |
| Intra-Cluster Correlation Estimates for HIV-related Outcomes from Care and Treatment Clinics in Dar es Salaam, Tanzania. | Barnhart D, Hertzmark E, Liu E, Mungure E, Muya AN, Sando D, Chalamilla G, Ulenga N, Bärnighausen T, Fawzi W, Spiegelman D | Contemporary clinical trials communications | 27766318 | Contemp Clin Trials Commun | 2016 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/27766318 |
| Spiegelman and Zhou Respond. | Spiegelman D, Zhou X | American journal of public health | 30726133 | Am J Public Health | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30726133 |
| "Cross-sectional" stepped wedge designs always reduce the required sample size when there is no time effect. | Zhou X, Liao X, Spiegelman D | Journal of clinical epidemiology | 28093263 | J Clin Epidemiol | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28093263 |
| Inverse probability weighted estimation of risk under representative interventions in observational studies. | Young JG, Logan RW, Robins JM, Hernán MA | Journal of the American Statistical Association | 31564760 | J Am Stat Assoc | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31564760 |
| On the analysis of two-phase designs in cluster-correlated data settings. | Rivera-Rodriguez C, Spiegelman D, Haneuse S | Statistics in medicine | 31359448 | Stat Med | 2019 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/31359448 |
| Evaluating Public Health Interventions: 3. The Two-Stage Design for Confounding Bias Reduction-Having Your Cake and Eating It Two. | Spiegelman D, Rivera-Rodriguez CL, Haneuse S | American journal of public health | 27285260 | Am J Public Health | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27285260 |
| Spiegelman Responds. | Spiegelman D | American journal of public health | 27153027 | Am J Public Health | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27153027 |
| Evaluating Public Health Interventions: 4. The Nurses' Health Study and Methods for Eliminating Bias Attributable to Measurement Error and Misclassification. | Spiegelman D | American journal of public health | 27509282 | Am J Public Health | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27509282 |
| Overall, Direct, Spillover, and Composite Effects of Components of a Peer-Driven Intervention Package on Injection Risk Behavior Among People Who Inject Drugs in the HPTN 037 Study. | Hernández-Ramírez RU, Spiegelman D, Lok JJ, Forastiere L, Friedman SR, Latkin CA, Vermund SH, Buchanan AL | AIDS and behavior | 37932493 | AIDS Behav | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/37932493 |
| Access of choice-disabled young women in Botswana to government structural support programmes: a cross-sectional study. | Cockcroft A, Marokoane N, Kgakole L, Tswetla N, Andersson N | AIDS care | 29848044 | AIDS Care | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29848044 |
| ANALYSIS OF "LEARN-AS-YOU-GO" (LAGO) STUDIES. | Nevo D, Lok JJ, Spiegelman D | Annals of statistics | 35510045 | Ann Stat | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/35510045 |
| Exposure misclassification in propensity score-based time-to-event data analysis. | Yang Y, Wang M | Statistical methods in medical research | 33826453 | Stat Methods Med Res | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33826453 |
| How are qualitative methods used in implementation science research? A scoping review protocol. | Hagaman A, Rhodes EC, Nyhan K, Katague M, Schwartz A, Spiegelman D | JBI evidence synthesis | 33323772 | JBI Evid Synth | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33323772 |
| On the Analysis of Case-Control Studies in Cluster-correlated Data Settings. | Haneuse S, Rivera-Rodriguez C | Epidemiology (Cambridge, Mass.) | 29068840 | Epidemiology | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29068840 |
| The Association of Cooking Fuel Use, Dietary Intake, and Blood Pressure among Rural Women in China. | Bellows AL, Spiegelman D, Du S, Jaacks LM | International journal of environmental research and public health | 32751678 | Int J Environ Res Public Health | 2020 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/32751678 |
| Association of the US President's Emergency Plan for AIDS Relief's Funding With Prevention of Mother-to-Child Transmission of HIV in Kenya. | Barnhart DA, Tsikhutsu I, Kirui D, Sawe F, Muli J, Sugut W, Abboud N, Birx D, Hamm T, Coakley P, Hickey PW, Wolfman V, Lee E, Spiegelman D | JAMA network open | 31517966 | JAMA Netw Open | 2019 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/31517966 |
| Assessing Direct and Spillover Effects of Intervention Packages in Network-Randomized Studies. | Buchanan AL, Hernández-Ramírez RU, Lok JJ, Vermund SH, Friedman SR, Forastiere L, Spiegelman D | medRxiv : the preprint server for health sciences | 38352598 | medRxiv | 2024 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/38352598 |
| Coaching Intensity, Adherence to Essential Birth Practices, and Health Outcomes in the BetterBirth Trial in Uttar Pradesh, India. | Barnhart DA, Spiegelman D, Zigler CM, Kara N, Delaney MM, Kalita T, Maji P, Hirschhorn LR, Semrau KEA | Global health, science and practice | 32127359 | Glob Health Sci Pract | 2020 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/32127359 |
| Drivers of healthy eating in a workplace in Nepal: a qualitative study. | Tamrakar D, Shrestha A, Rai A, Karmacharya BM, Malik V, Mattei J, Spiegelman D | BMJ open | 32102804 | BMJ Open | 2020 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/32102804 |
| Worksite intervention study to prevent diabetes in Nepal: a randomised trial protocol. | Pyakurel P, Shrestha A, Karmacharya BM, Budhathoki SS, Chaudhari RK, Tamrakar D, Shrestha A, Karmacharya RM, Shrestha A, Sharma S, Sharma SK, Spiegelman D | Open heart | 32847993 | Open Heart | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32847993 |
| Evaluating Public Health Interventions: 6. Modeling Ratios or Differences? Let the Data Tell Us. | Spiegelman D, VanderWeele TJ | American journal of public health | 28590865 | Am J Public Health | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28590865 |
| Survival analysis with functions of mismeasured covariate histories: the case of chronic air pollution exposure in relation to mortality in the nurses' health study. | Liao X, Zhou X, Wang M, Hart JE, Laden F, Spiegelman D | Journal of the Royal Statistical Society. Series C, Applied statistics | 29430064 | J R Stat Soc Ser C Appl Stat | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29430064 |
| Multiple robust estimation of marginal structural mean models for unconstrained outcomes. | Babino L, Rotnitzky A, Robins J | Biometrics | 30004573 | Biometrics | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30004573 |
| The effect of risk factor misclassification on the partial population attributable risk. | Wong BHW, Peskoe SB, Spiegelman D | Statistics in medicine | 29333614 | Stat Med | 2018 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/29333614 |
| Structural, interpersonal, psychosocial, and behavioral risk factors for HIV acquisition among female bar workers in Dar es Salaam, Tanzania. | Barnhart DA, Harling G, Muya A, Ortblad KF, Mashasi I, Dambach P, Ulenga N, Mboggo E, Oldenburg CE, Bärnighausen TW, Spiegelman D | AIDS care | 31079476 | AIDS Care | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31079476 |
| Augmented pseudo-likelihood estimation for two-phase studies. | Rivera-Rodriguez C, Haneuse S, Wang M, Spiegelman D | Statistical methods in medical research | 30834815 | Stat Methods Med Res | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30834815 |
| Estimation in the Cox survival regression model with covariate measurement error and a changepoint. | Agami S, Zucker DM, Spiegelman D | Biometrical journal. Biometrische Zeitschrift | 32003495 | Biom J | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32003495 |
| Assessing the quality of tuberculosis care using routine surveillance data: a process evaluation employing the Zero TB Indicator Framework in Mongolia. | Saranjav A, Parisi C, Zhou X, Dorjnamjil K, Samdan T, Erdenebaatar S, Chuluun A, Dalkh T, Ganbaatar G, Brooks MB, Spiegelman D, Ganmaa D, Davis JL | BMJ open | 35973702 | BMJ Open | 2022 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/35973702 |
| Evaluating Public Health Interventions: 7. Let the Subject Matter Choose the Effect Measure: Ratio, Difference, or Something Else Entirely. | Spiegelman D, Khudyakov P, Wang M, Vanderweele TJ | American journal of public health | 29161073 | Am J Public Health | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29161073 |
| Dietary interventions to prevent and manage diabetes in worksite settings: a meta-analysis. | Shrestha A, Karmacharya BM, Khudyakov P, Weber MB, Spiegelman D | Journal of occupational health | 29187673 | J Occup Health | 2018 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/29187673 |
| Estimation and Inference for the Mediation Proportion. | Nevo D, Liao X, Spiegelman D | The international journal of biostatistics | 28930628 | Int J Biostat | 2017 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/28930628 |
| Interpretation of the Individual Effect Under Treatment Spillover. | Crawford FW, Morozova O, Buchanan AL, Spiegelman D | American journal of epidemiology | 31094425 | Am J Epidemiol | 2019 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/31094425 |
| Impact of the Affordable Care Act on Colorectal Cancer Outcomes: A Systematic Review. | Xu MR, Kelly AMB, Kushi LH, Reed ME, Koh HK, Spiegelman D | American journal of preventive medicine | 32008799 | Am J Prev Med | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32008799 |
| Impact of the Affordable Care Act on Colorectal Cancer Incidence and Mortality. | Lee C, Kushi LH, Reed ME, Eldridge EH, Lee JK, Zhang J, Spiegelman D | American journal of preventive medicine | 34763959 | Am J Prev Med | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34763959 |
| swdpwr: A SAS macro and an R package for power calculations in stepped wedge cluster randomized trials. | Chen J, Zhou X, Li F, Spiegelman D | Computer methods and programs in biomedicine | 34818620 | Comput Methods Programs Biomed | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34818620 |
| Facilitators and barriers to healthy eating in a worksite cafeteria: a qualitative study. | Stern D, Blanco I, Olmos LA, Valdivia JJ, Shrestha A, Mattei J, Spiegelman D | BMC public health | 34022846 | BMC Public Health | 2021 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/34022846 |
| Evaluating Public Health Interventions: 2. Stepping Up to Routine Public Health Evaluation With the Stepped Wedge Design. | Spiegelman D | American journal of public health | 26885961 | Am J Public Health | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26885961 |
| Evaluating Public Health Interventions: 1. Examples, Definitions, and a Personal Note. | Spiegelman D | American journal of public health | 26562122 | Am J Public Health | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26562122 |
| Evaluating Public Health Interventions: 8. Causal Inference for Time-Invariant Interventions. | Spiegelman D, Zhou X | American journal of public health | 30024804 | Am J Public Health | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30024804 |
| Assessing Individual and Disseminated Effects in Network-Randomized Studies. | Buchanan AL, Vermund SH, Friedman SR, Spiegelman D | American journal of epidemiology | 30052722 | Am J Epidemiol | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30052722 |
| A maximum likelihood approach to power calculations for stepped wedge designs of binary outcomes. | Zhou X, Liao X, Kunz LM, Normand ST, Wang M, Spiegelman D | Biostatistics (Oxford, England) | 30084949 | Biostatistics | 2020 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/30084949 |
| Prevalence estimation when disease status is verified only among test positives: Applications in HIV screening programs. | G Thomas E, B Peskoe S, Spiegelman D | Statistics in medicine | 29230839 | Stat Med | 2018 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/29230839 |
| Diet and Health - What Should We Eat ? | Shrestha A, Spiegelman D | Kathmandu University medical journal (KUMJ) | 30353891 | Kathmandu Univ Med J (KUMJ) | 2017 Jul-Sept. | https://www.ncbi.nlm.nih.gov/pubmed/30353891 |
| Partial Identification of the Average Treatment Effect Using Instrumental Variables: Review of Methods for Binary Instruments, Treatments, and Outcomes. | Swanson SA, Hernán MA, Miller M, Robins JM, Richardson TS | Journal of the American Statistical Association | 31537952 | J Am Stat Assoc | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/31537952 |
| Nepal Pioneer Worksite Intervention Study to lower cardio-metabolic risk factors: design and protocol. | Shrestha A, Tamrakar D, Karmacharya BM, Shrestha A, Shrestha R, Bhatta RD, Pyakurel P, Khudyakov P, Malik V, Mattei J, Spiegelman D | BMC cardiovascular disorders | 30819098 | BMC Cardiovasc Disord | 2019 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/30819098 |
| Optimizing the development and evaluation of complex interventions: lessons learned from the BetterBirth Program and associated trial. | Barnhart DA, Semrau KEA, Zigler CM, Molina RL, Delaney MM, Hirschhorn LR, Spiegelman D | Implementation science communications | 32885188 | Implement Sci Commun | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32885188 |
| Assessing Direct and Spillover Effects of Intervention Packages in Network-randomized Studies. | Buchanan AL, Hernández-Ramírez RU, Lok JJ, Vermund SH, Friedman SR, Forastiere L, Spiegelman D | Epidemiology (Cambridge, Mass.) | 38709023 | Epidemiology | 2024 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/38709023 |
| Mediation analysis in the presence of continuous exposure measurement error. | Cheng C, Spiegelman D, Li F | Statistics in medicine | 36869626 | Stat Med | 2023 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/36869626 |
| Deficient spermiogenesis in mice lacking Rlim. | Wang F, Gervasi MG, Bošković A, Sun F, Rinaldi VD, Yu J, Wallingford MC, Tourzani DA, Mager J, Zhu LJ, Rando OJ, Visconti PE, Strittmatter L, Bach I | eLife | 33620316 | Elife | 2021 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/33620316 |
| Father-son chats: inheriting stress through sperm RNA. | Sharma U, Rando OJ | Cell metabolism | 24896534 | Cell Metab | 2014 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/24896534 |
| Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals. | Sharma U, Conine CC, Shea JM, Boskovic A, Derr AG, Bing XY, Belleannee C, Kucukural A, Serra RW, Sun F, Song L, Carone BR, Ricci EP, Li XZ, Fauquier L, Moore MJ, Sullivan R, Mello CC, Garber M, Rando OJ | Science (New York, N.Y.) | 26721685 | Science | 2016 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/26721685 |
| I'm eating for two: parental dietary effects on offspring metabolism. | Rando OJ, Simmons RA | Cell | 25815988 | Cell | 2015 Mar 26 | https://www.ncbi.nlm.nih.gov/pubmed/25815988 |
| Genetic and Epigenetic Variation, but Not Diet, Shape the Sperm Methylome. | Shea JM, Serra RW, Carone BR, Shulha HP, Kucukural A, Ziller MJ, Vallaster MP, Gu H, Tapper AR, Gardner PD, Meissner A, Garber M, Rando OJ | Developmental cell | 26702833 | Dev Cell | 2015 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/26702833 |
| Transcriptome-wide Analysis of Roles for tRNA Modifications in Translational Regulation. | Chou HJ, Donnard E, Gustafsson HT, Garber M, Rando OJ | Molecular cell | 29198561 | Mol Cell | 2017 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/29198561 |
| Rlim-Dependent and -Independent Pathways for X Chromosome Inactivation in Female ESCs. | Wang F, McCannell KN, Bošković A, Zhu X, Shin J, Yu J, Gallant J, Byron M, Lawrence JB, Zhu LJ, Jones SN, Rando OJ, Fazzio TG, Bach I | Cell reports | 29281819 | Cell Rep | 2017 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/29281819 |
| Regulation of X-linked gene expression during early mouse development by Rlim. | Wang F, Shin J, Shea JM, Yu J, Bošković A, Byron M, Zhu X, Shalek AK, Regev A, Lawrence JB, Torres EM, Zhu LJ, Rando OJ, Bach I | eLife | 27642011 | Elife | 2016 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/27642011 |
| Small RNAs Are Trafficked from the Epididymis to Developing Mammalian Sperm. | Sharma U, Sun F, Conine CC, Reichholf B, Kukreja S, Herzog VA, Ameres SL, Rando OJ | Developmental cell | 30057273 | Dev Cell | 2018 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/30057273 |
| Small RNAs Gained during Epididymal Transit of Sperm Are Essential for Embryonic Development in Mice. | Conine CC, Sun F, Song L, Rivera-Pérez JA, Rando OJ | Developmental cell | 30057276 | Dev Cell | 2018 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/30057276 |
| Enhanced Nociception in Angelman Syndrome Model Mice. | McCoy ES, Taylor-Blake B, Aita M, Simon JM, Philpot BD, Zylka MJ | The Journal of neuroscience : the official journal of the Society for Neuroscience | 28931574 | J Neurosci | 2017 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/28931574 |
| Toward a conceptual framework for early brain and behavior development in autism. | Piven J, Elison JT, Zylka MJ | Molecular psychiatry | 28937691 | Mol Psychiatry | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28937691 |
| Identification of chemicals that mimic transcriptional changes associated with autism, brain aging and neurodegeneration. | Pearson BL, Simon JM, McCoy ES, Salazar G, Fragola G, Zylka MJ | Nature communications | 27029645 | Nat Commun | 2016 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/27029645 |
| Gene length matters in neurons. | Zylka MJ, Simon JM, Philpot BD | Neuron | 25905808 | Neuron | 2015 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/25905808 |
| An Autism-Linked Mutation Disables Phosphorylation Control of UBE3A. | Yi JJ, Berrios J, Newbern JM, Snider WD, Philpot BD, Hahn KM, Zylka MJ | Cell | 26255772 | Cell | 2015 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/26255772 |
| Deletion of Topoisomerase 1 in excitatory neurons causes genomic instability and early onset neurodegeneration. | Fragola G, Mabb AM, Taylor-Blake B, Niehaus JK, Chronister WD, Mao H, Simon JM, Yuan H, Li Z, McConnell MJ, Zylka MJ | Nature communications | 32327659 | Nat Commun | 2020 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/32327659 |
| The Troubled Touch of Autism. | Tuttle AH, Bartsch VB, Zylka MJ | Cell | 27419865 | Cell | 2016 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/27419865 |
| Maternal Ube3a Loss Disrupts Sleep Homeostasis But Leaves Circadian Rhythmicity Largely Intact. | Ehlen JC, Jones KA, Pinckney L, Gray CL, Burette S, Weinberg RJ, Evans JA, Brager AJ, Zylka MJ, Paul KN, Philpot BD, DeBruyne JP | The Journal of neuroscience : the official journal of the Society for Neuroscience | 26446213 | J Neurosci | 2015 Oct 7 | https://www.ncbi.nlm.nih.gov/pubmed/26446213 |
| High-throughput screening and classification of chemicals and their effects on neuronal gene expression using RASL-seq. | Simon JM, Paranjape SR, Wolter JM, Salazar G, Zylka MJ | Scientific reports | 30872602 | Sci Rep | 2019 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/30872602 |
| lncRNA-Induced Spread of Polycomb Controlled by Genome Architecture, RNA Abundance, and CpG Island DNA. | Schertzer MD, Braceros KCA, Starmer J, Cherney RE, Lee DM, Salazar G, Justice M, Bischoff SR, Cowley DO, Ariel P, Zylka MJ, Dowen JM, Magnuson T, Calabrese JM | Molecular cell | 31256989 | Mol Cell | 2019 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/31256989 |
| The autism-linked UBE3A T485A mutant E3 ubiquitin ligase activates the Wnt/β-catenin pathway by inhibiting the proteasome. | Yi JJ, Paranjape SR, Walker MP, Choudhury R, Wolter JM, Fragola G, Emanuele MJ, Major MB, Zylka MJ | The Journal of biological chemistry | 28559284 | J Biol Chem | 2017 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/28559284 |
| Topoisomerase 1 inhibition reversibly impairs synaptic function. | Mabb AM, Kullmann PH, Twomey MA, Miriyala J, Philpot BD, Zylka MJ | Proceedings of the National Academy of Sciences of the United States of America | 25404338 | Proc Natl Acad Sci U S A | 2014 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/25404338 |
| Zylka et al. reply. | Zylka MJ, Philpot BD, King IF | Nature | 25100485 | Nature | 2014 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/25100485 |
| Chd8 haploinsufficiency impairs early brain development and protein homeostasis later in life. | Jiménez JA, Ptacek TS, Tuttle AH, Schmid RS, Moy SS, Simon JM, Zylka MJ | Molecular autism | 33023670 | Mol Autism | 2020 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/33023670 |
| Single-cell transcriptomic analysis of mouse neocortical development. | Loo L, Simon JM, Xing L, McCoy ES, Niehaus JK, Guo J, Anton ES, Zylka MJ | Nature communications | 30635555 | Nat Commun | 2019 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/30635555 |
| Topoisomerase 1 Regulates Gene Expression in Neurons through Cleavage Complex-Dependent and -Independent Mechanisms. | Mabb AM, Simon JM, King IF, Lee HM, An LK, Philpot BD, Zylka MJ | PloS one | 27231886 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27231886 |
| A deep neural network to assess spontaneous pain from mouse facial expressions. | Tuttle AH, Molinaro MJ, Jethwa JF, Sotocinal SG, Prieto JC, Styner MA, Mogil JS, Zylka MJ | Molecular pain | 29546805 | Mol Pain | 2018 Jan-Dec | https://www.ncbi.nlm.nih.gov/pubmed/29546805 |
| Choice of vehicle affects pyraclostrobin toxicity in mice. | Tuttle AH, Salazar G, Cooper EM, Stapleton HM, Zylka MJ | Chemosphere | 30497033 | Chemosphere | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30497033 |
| Potential energy landscapes identify the information-theoretic nature of the epigenome. | Jenkinson G, Pujadas E, Goutsias J, Feinberg AP | Nature genetics | 28346445 | Nat Genet | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28346445 |
| Improving Metabolic Health Through Precision Dietetics in Mice. | Barrington WT, Wulfridge P, Wells AE, Rojas CM, Howe SYF, Perry A, Hua K, Pellizzon MA, Hansen KD, Voy BH, Bennett BJ, Pomp D, Feinberg AP, Threadgill DW | Genetics | 29158425 | Genetics | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29158425 |
| DNA methylation as a mediator of HLA-DRB1*15:01 and a protective variant in multiple sclerosis. | Kular L, Liu Y, Ruhrmann S, Zheleznyakova G, Marabita F, Gomez-Cabrero D, James T, Ewing E, Lindén M, Górnikiewicz B, Aeinehband S, Stridh P, Link J, Andlauer TFM, Gasperi C, Wiendl H, Zipp F, Gold R, Tackenberg B, Weber F, Hemmer B, Strauch K, Heilmann-Heimbach S, Rawal R, Schminke U, Schmidt CO, Kacprowski T, Franke A, Laudes M, Dilthey AT, Celius EG, Søndergaard HB, Tegnér J, Harbo HF, Oturai AB, Olafsson S, Eggertsson HP, Halldorsson BV, Hjaltason H, Olafsson E, Jonsdottir I, Stefansson K, Olsson T, Piehl F, Ekström TJ, Kockum I, Feinberg AP, Jagodic M | Nature communications | 29921915 | Nat Commun | 2018 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/29921915 |
| Determinants of Adiposity Rebound Timing in Children. | Ip EH, Marshall SA, Saldana S, Skelton JA, Suerken CK, Arcury TA, Quandt SA | The Journal of pediatrics | 28242030 | J Pediatr | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28242030 |
| Mouse-human experimental epigenetic analysis unmasks dietary targets and genetic liability for diabetic phenotypes. | Multhaup ML, Seldin MM, Jaffe AE, Lei X, Kirchner H, Mondal P, Li Y, Rodriguez V, Drong A, Hussain M, Lindgren C, McCarthy M, Näslund E, Zierath JR, Wong GW, Feinberg AP | Cell metabolism | 25565211 | Cell Metab | 2015 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/25565211 |
| Accurate proteome-wide protein quantification from high-resolution 15N mass spectra. | Khan Z, Amini S, Bloom JS, Ruse C, Caudy AA, Kruglyak L, Singh M, Perlman DH, Tavazoie S | Genome biology | 22182234 | Genome Biol | 2011 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/22182234 |
| Bacterial adaptation through loss of function. | Hottes AK, Freddolino PL, Khare A, Donnell ZN, Liu JC, Tavazoie S | PLoS genetics | 23874220 | PLoS Genet | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23874220 |
| Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry. | Freddolino L, Yang J, Momen-Roknabadi A, Tavazoie S | eLife | 29620524 | Elife | 2018 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/29620524 |
| Principles of Systems Biology, No. 29. | Cell systems | 29792823 | Cell Syst | 2018 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/29792823 | |
| The dawn of virtual cell biology. | Freddolino PL, Tavazoie S | Cell | 22817888 | Cell | 2012 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/22817888 |
| Great ape genetic diversity and population history. | Prado-Martinez J, Sudmant PH, Kidd JM, Li H, Kelley JL, Lorente-Galdos B, Veeramah KR, Woerner AE, O'Connor TD, Santpere G, Cagan A, Theunert C, Casals F, Laayouni H, Munch K, Hobolth A, Halager AE, Malig M, Hernandez-Rodriguez J, Hernando-Herraez I, Prüfer K, Pybus M, Johnstone L, Lachmann M, Alkan C, Twigg D, Petit N, Baker C, Hormozdiari F, Fernandez-Callejo M, Dabad M, Wilson ML, Stevison L, Camprubí C, Carvalho T, Ruiz-Herrera A, Vives L, Mele M, Abello T, Kondova I, Bontrop RE, Pusey A, Lankester F, Kiyang JA, Bergl RA, Lonsdorf E, Myers S, Ventura M, Gagneux P, Comas D, Siegismund H, Blanc J, Agueda-Calpena L, Gut M, Fulton L, Tishkoff SA, Mullikin JC, Wilson RK, Gut IG, Gonder MK, Ryder OA, Hahn BH, Navarro A, Akey JM, Bertranpetit J, Reich D, Mailund T, Schierup MH, Hvilsom C, Andrés AM, Wall JD, Bustamante CD, Hammer MF, Eichler EE, Marques-Bonet T | Nature | 23823723 | Nature | 2013 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/23823723 |
| Higher frequency of genetic variants conferring increased risk for ADRs for commonly used drugs treating cancer, AIDS and tuberculosis in persons of African descent. | Aminkeng F, Ross CJ, Rassekh SR, Brunham LR, Sistonen J, Dube MP, Ibrahim M, Nyambo TB, Omar SA, Froment A, Bodo JM, Tishkoff S, Carleton BC, Hayden MR, Canadian Pharmacogenomics Network for Drug Safety Consortium | The pharmacogenomics journal | 23588107 | Pharmacogenomics J | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23588107 |
| Specific inactivation of two immunomodulatory SIGLEC genes during human evolution. | Wang X, Mitra N, Secundino I, Banda K, Cruz P, Padler-Karavani V, Verhagen A, Reid C, Lari M, Rizzi E, Balsamo C, Corti G, De Bellis G, Longo L, NISC Comparative Sequencing Program, Beggs W, Caramelli D, Tishkoff SA, Hayakawa T, Green ED, Mullikin JC, Nizet V, Bui J, Varki A | Proceedings of the National Academy of Sciences of the United States of America | 22665810 | Proc Natl Acad Sci U S A | 2012 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/22665810 |
| Population Genomics of Human Adaptation. | Lachance J, Tishkoff SA | Annual review of ecology, evolution, and systematics | 25383060 | Annu Rev Ecol Evol Syst | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25383060 |
| Limited evidence for adaptive evolution and functional effect of allelic variation at rs702424 in the promoter of the TAS2R16 bitter taste receptor gene in Africa. | Campbell MC, Ranciaro A, Zinshteyn D, Rawlings-Goss R, Hirbo J, Thompson S, Woldemeskel D, Froment A, Omar SA, Bodo JM, Nyambo T, Belay G, Drayna D, Breslin PA, Tishkoff SA | Journal of human genetics | 24785689 | J Hum Genet | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24785689 |
| Structural diversity and African origin of the 17q21.31 inversion polymorphism. | Steinberg KM, Antonacci F, Sudmant PH, Kidd JM, Campbell CD, Vives L, Malig M, Scheinfeldt L, Beggs W, Ibrahim M, Lema G, Nyambo TB, Omar SA, Bodo JM, Froment A, Donnelly MP, Kidd KK, Tishkoff SA, Eichler EE | Nature genetics | 22751100 | Nat Genet | 2012 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/22751100 |
| Evolutionary history and adaptation from high-coverage whole-genome sequences of diverse African hunter-gatherers. | Lachance J, Vernot B, Elbers CC, Ferwerda B, Froment A, Bodo JM, Lema G, Fu W, Nyambo TB, Rebbeck TR, Zhang K, Akey JM, Tishkoff SA | Cell | 22840920 | Cell | 2012 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/22840920 |
| A Locus at 5q33.3 Confers Resistance to Tuberculosis in Highly Susceptible Individuals. | Sobota RS, Stein CM, Kodaman N, Scheinfeldt LB, Maro I, Wieland-Alter W, Igo RP Jr, Magohe A, Malone LL, Chervenak K, Hall NB, Modongo C, Zetola N, Matee M, Joloba M, Froment A, Nyambo TB, Moore JH, Scott WK, Lahey T, Boom WH, von Reyn CF, Tishkoff SA, Sirugo G, Williams SM | American journal of human genetics | 26942285 | Am J Hum Genet | 2016 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/26942285 |
| Genomic evidence for shared common ancestry of East African hunting-gathering populations and insights into local adaptation. | Scheinfeldt LB, Soi S, Lambert C, Ko WY, Coulibaly A, Ranciaro A, Thompson S, Hirbo J, Beggs W, Ibrahim M, Nyambo T, Omar S, Woldemeskel D, Belay G, Froment A, Kim J, Tishkoff SA | Proceedings of the National Academy of Sciences of the United States of America | 30782801 | Proc Natl Acad Sci U S A | 2019 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/30782801 |
| The Sustained Impact of Model Organisms-in Genetics and Epigenetics. | Bonini NM, Berger SL | Genetics | 28049700 | Genetics | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28049700 |
| Genome-wide patterns of population structure and admixture in West Africans and African Americans. | Bryc K, Auton A, Nelson MR, Oksenberg JR, Hauser SL, Williams S, Froment A, Bodo JM, Wambebe C, Tishkoff SA, Bustamante CD | Proceedings of the National Academy of Sciences of the United States of America | 20080753 | Proc Natl Acad Sci U S A | 2010 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/20080753 |
| Sequence diversity of Pan troglodytes subspecies and the impact of WFDC6 selective constraints in reproductive immunity. | Ferreira Z, Hurle B, Andrés AM, Kretzschmar WW, Mullikin JC, Cherukuri PF, Cruz P, Gonder MK, Stone AC, Tishkoff S, Swanson WJ, NISC Comparative Sequencing Program, Green ED, Clark AG, Seixas S | Genome biology and evolution | 24356879 | Genome Biol Evol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24356879 |
| Origin and differential selection of allelic variation at TAS2R16 associated with salicin bitter taste sensitivity in Africa. | Campbell MC, Ranciaro A, Zinshteyn D, Rawlings-Goss R, Hirbo J, Thompson S, Woldemeskel D, Froment A, Rucker JB, Omar SA, Bodo JM, Nyambo T, Belay G, Drayna D, Breslin PA, Tishkoff SA | Molecular biology and evolution | 24177185 | Mol Biol Evol | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24177185 |
| Shorter telomere length in Europeans than in Africans due to polygenetic adaptation. | Hansen ME, Hunt SC, Stone RC, Horvath K, Herbig U, Ranciaro A, Hirbo J, Beggs W, Reiner AP, Wilson JG, Kimura M, De Vivo I, Chen MM, Kark JD, Levy D, Nyambo T, Tishkoff SA, Aviv A | Human molecular genetics | 26936823 | Hum Mol Genet | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/26936823 |
| Global diversity, population stratification, and selection of human copy-number variation. | Sudmant PH, Mallick S, Nelson BJ, Hormozdiari F, Krumm N, Huddleston J, Coe BP, Baker C, Nordenfelt S, Bamshad M, Jorde LB, Posukh OL, Sahakyan H, Watkins WS, Yepiskoposyan L, Abdullah MS, Bravi CM, Capelli C, Hervig T, Wee JT, Tyler-Smith C, van Driem G, Romero IG, Jha AR, Karachanak-Yankova S, Toncheva D, Comas D, Henn B, Kivisild T, Ruiz-Linares A, Sajantila A, Metspalu E, Parik J, Villems R, Starikovskaya EB, Ayodo G, Beall CM, Di Rienzo A, Hammer MF, Khusainova R, Khusnutdinova E, Klitz W, Winkler C, Labuda D, Metspalu M, Tishkoff SA, Dryomov S, Sukernik R, Patterson N, Reich D, Eichler EE | Science (New York, N.Y.) | 26249230 | Science | 2015 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/26249230 |
| Biased gene conversion skews allele frequencies in human populations, increasing the disease burden of recessive alleles. | Lachance J, Tishkoff SA | American journal of human genetics | 25279983 | Am J Hum Genet | 2014 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/25279983 |
| Genetic origins of lactase persistence and the spread of pastoralism in Africa. | Ranciaro A, Campbell MC, Hirbo JB, Ko WY, Froment A, Anagnostou P, Kotze MJ, Ibrahim M, Nyambo T, Omar SA, Tishkoff SA | American journal of human genetics | 24630847 | Am J Hum Genet | 2014 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/24630847 |
| Going global by adapting local: A review of recent human adaptation. | Fan S, Hansen ME, Lo Y, Tishkoff SA | Science (New York, N.Y.) | 27846491 | Science | 2016 Oct 7 | https://www.ncbi.nlm.nih.gov/pubmed/27846491 |
| Extraction and Analysis of Pan-metabolome Polar Metabolites by Ultra Performance Liquid Chromatography-Tandem Mass Spectrometry (UPLC-MS/MS). | Malik DM, Rhoades S, Weljie A | Bio-protocol | 29623284 | Bio Protoc | 2018 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/29623284 |
| Genetically Determined Later Puberty Impacts Lowered Bone Mineral Density in Childhood and Adulthood. | Cousminer DL, Mitchell JA, Chesi A, Roy SM, Kalkwarf HJ, Lappe JM, Gilsanz V, Oberfield SE, Shepherd JA, Kelly A, McCormack SE, Voight BF, Zemel BS, Grant SF | Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research | 29068475 | J Bone Miner Res | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29068475 |
| The Simons Genome Diversity Project: 300 genomes from 142 diverse populations. | Mallick S, Li H, Lipson M, Mathieson I, Gymrek M, Racimo F, Zhao M, Chennagiri N, Nordenfelt S, Tandon A, Skoglund P, Lazaridis I, Sankararaman S, Fu Q, Rohland N, Renaud G, Erlich Y, Willems T, Gallo C, Spence JP, Song YS, Poletti G, Balloux F, van Driem G, de Knijff P, Romero IG, Jha AR, Behar DM, Bravi CM, Capelli C, Hervig T, Moreno-Estrada A, Posukh OL, Balanovska E, Balanovsky O, Karachanak-Yankova S, Sahakyan H, Toncheva D, Yepiskoposyan L, Tyler-Smith C, Xue Y, Abdullah MS, Ruiz-Linares A, Beall CM, Di Rienzo A, Jeong C, Starikovskaya EB, Metspalu E, Parik J, Villems R, Henn BM, Hodoglugil U, Mahley R, Sajantila A, Stamatoyannopoulos G, Wee JT, Khusainova R, Khusnutdinova E, Litvinov S, Ayodo G, Comas D, Hammer MF, Kivisild T, Klitz W, Winkler CA, Labuda D, Bamshad M, Jorde LB, Tishkoff SA, Watkins WS, Metspalu M, Dryomov S, Sukernik R, Singh L, Thangaraj K, Pääbo S, Kelso J, Patterson N, Reich D | Nature | 27654912 | Nature | 2016 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/27654912 |
| Apparent variation in Neanderthal admixture among African populations is consistent with gene flow from Non-African populations. | Wang S, Lachance J, Tishkoff SA, Hey J, Xing J | Genome biology and evolution | 24162011 | Genome Biol Evol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24162011 |
| SNP ascertainment bias in population genetic analyses: why it is important, and how to correct it. | Lachance J, Tishkoff SA | BioEssays : news and reviews in molecular, cellular and developmental biology | 23836388 | Bioessays | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23836388 |
| Genetic adaptation to high altitude in the Ethiopian highlands. | Scheinfeldt LB, Soi S, Thompson S, Ranciaro A, Woldemeskel D, Beggs W, Lambert C, Jarvis JP, Abate D, Belay G, Tishkoff SA | Genome biology | 22264333 | Genome Biol | 2012 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/22264333 |
| The genetic prehistory of southern Africa. | Pickrell JK, Patterson N, Barbieri C, Berthold F, Gerlach L, Güldemann T, Kure B, Mpoloka SW, Nakagawa H, Naumann C, Lipson M, Loh PR, Lachance J, Mountain J, Bustamante CD, Berger B, Tishkoff SA, Henn BM, Stoneking M, Reich D, Pakendorf B | Nature communications | 23072811 | Nat Commun | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23072811 |
| Regulation of amyloid-β dynamics and pathology by the circadian clock. | Kress GJ, Liao F, Dimitry J, Cedeno MR, FitzGerald GA, Holtzman DM, Musiek ES | The Journal of experimental medicine | 29382695 | J Exp Med | 2018 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/29382695 |
| Identifying Darwinian selection acting on different human APOL1 variants among diverse African populations. | Ko WY, Rajan P, Gomez F, Scheinfeldt L, An P, Winkler CA, Froment A, Nyambo TB, Omar SA, Wambebe C, Ranciaro A, Hirbo JB, Tishkoff SA | American journal of human genetics | 23768513 | Am J Hum Genet | 2013 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/23768513 |
| Genomic analyses inform on migration events during the peopling of Eurasia. | Pagani L, Lawson DJ, Jagoda E, Mörseburg A, Eriksson A, Mitt M, Clemente F, Hudjashov G, DeGiorgio M, Saag L, Wall JD, Cardona A, Mägi R, Wilson Sayres MA, Kaewert S, Inchley C, Scheib CL, Järve M, Karmin M, Jacobs GS, Antao T, Iliescu FM, Kushniarevich A, Ayub Q, Tyler-Smith C, Xue Y, Yunusbayev B, Tambets K, Mallick CB, Saag L, Pocheshkhova E, Andriadze G, Muller C, Westaway MC, Lambert DM, Zoraqi G, Turdikulova S, Dalimova D, Sabitov Z, Sultana GNN, Lachance J, Tishkoff S, Momynaliev K, Isakova J, Damba LD, Gubina M, Nymadawa P, Evseeva I, Atramentova L, Utevska O, Ricaut FX, Brucato N, Sudoyo H, Letellier T, Cox MP, Barashkov NA, Skaro V, Mulahasanovic L, Primorac D, Sahakyan H, Mormina M, Eichstaedt CA, Lichman DV, Abdullah S, Chaubey G, Wee JTS, Mihailov E, Karunas A, Litvinov S, Khusainova R, Ekomasova N, Akhmetova V, Khidiyatova I, Marjanović D, Yepiskoposyan L, Behar DM, Balanovska E, Metspalu A, Derenko M, Malyarchuk B, Voevoda M, Fedorova SA, Osipova LP, Lahr MM, Gerbault P, Leavesley M, Migliano AB, Petraglia M, Balanovsky O, Khusnutdinova EK, Metspalu E, Thomas MG, Manica A, Nielsen R, Villems R, Willerslev E, Kivisild T, Metspalu M | Nature | 27654910 | Nature | 2016 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/27654910 |
| Whole-genome sequence analyses of Western Central African Pygmy hunter-gatherers reveal a complex demographic history and identify candidate genes under positive natural selection. | Hsieh P, Veeramah KR, Lachance J, Tishkoff SA, Wall JD, Hammer MF, Gutenkunst RN | Genome research | 26888263 | Genome Res | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26888263 |
| Model-based analyses of whole-genome data reveal a complex evolutionary history involving archaic introgression in Central African Pygmies. | Hsieh P, Woerner AE, Wall JD, Lachance J, Tishkoff SA, Gutenkunst RN, Hammer MF | Genome research | 26888264 | Genome Res | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26888264 |
| Genetic Hitchhiking and Population Bottlenecks Contribute to Prostate Cancer Disparities in Men of African Descent. | Lachance J, Berens AJ, Hansen MEB, Teng AK, Tishkoff SA, Rebbeck TR | Cancer research | 29438991 | Cancer Res | 2018 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/29438991 |
| Population structure of human gut bacteria in a diverse cohort from rural Tanzania and Botswana. | Hansen MEB, Rubel MA, Bailey AG, Ranciaro A, Thompson SR, Campbell MC, Beggs W, Dave JR, Mokone GG, Mpoloka SW, Nyambo T, Abnet C, Chanock SJ, Bushman FD, Tishkoff SA | Genome biology | 30665461 | Genome Biol | 2019 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/30665461 |
| The peopling of the African continent and the diaspora into the new world. | Campbell MC, Hirbo JB, Townsend JP, Tishkoff SA | Current opinion in genetics & development | 25461616 | Curr Opin Genet Dev | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25461616 |
| In vivo measurements of interindividual differences in DNA glycosylases and APE1 activities. | Chaim IA, Nagel ZD, Jordan JJ, Mazzucato P, Ngo LP, Samson LD | Proceedings of the National Academy of Sciences of the United States of America | 29122935 | Proc Natl Acad Sci U S A | 2017 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/29122935 |
| Microcolony Size Distribution Assay Enables High-Throughput Cell Survival Quantitation. | Ngo LP, Chan TK, Ge J, Samson LD, Engelward BP | Cell reports | 30726746 | Cell Rep | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30726746 |
| Towards precision prevention: Technologies for identifying healthy individuals with high risk of disease. | Nagel ZD, Engelward BP, Brenner DJ, Begley TJ, Sobol RW, Bielas JH, Stambrook PJ, Wei Q, Hu JJ, Terry MB, Dilworth C, McAllister KA, Reinlib L, Worth L, Shaughnessy DT | Mutation research | 28458064 | Mutat Res | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28458064 |
| Multiplexed DNA repair assays for multiple lesions and multiple doses via transcription inhibition and transcriptional mutagenesis. | Nagel ZD, Margulies CM, Chaim IA, McRee SK, Mazzucato P, Ahmad A, Abo RP, Butty VL, Forget AL, Samson LD | Proceedings of the National Academy of Sciences of the United States of America | 24757057 | Proc Natl Acad Sci U S A | 2014 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/24757057 |
| Single-cell analysis of ribonucleotide reductase transcriptional and translational response to DNA damage. | Mazumder A, Tummler K, Bathe M, Samson LD | Molecular and cellular biology | 23184665 | Mol Cell Biol | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23184665 |
| Minor Changes in Expression of the Mismatch Repair Protein MSH2 Exert a Major Impact on Glioblastoma Response to Temozolomide. | McFaline-Figueroa JL, Braun CJ, Stanciu M, Nagel ZD, Mazzucato P, Sangaraju D, Cerniauskas E, Barford K, Vargas A, Chen Y, Tretyakova N, Lees JA, Hemann MT, White FM, Samson LD | Cancer research | 26025730 | Cancer Res | 2015 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/26025730 |
| CometChip analysis of human primary lymphocytes enables quantification of inter-individual differences in the kinetics of repair of oxidative DNA damage. | Ngo LP, Kaushal S, Chaim IA, Mazzucato P, Ricciardi C, Samson LD, Nagel ZD, Engelward BP | Free radical biology & medicine | 34324980 | Free Radic Biol Med | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34324980 |
| DNA Repair Capacity in Multiple Pathways Predicts Chemoresistance in Glioblastoma Multiforme. | Nagel ZD, Kitange GJ, Gupta SK, Joughin BA, Chaim IA, Mazzucato P, Lauffenburger DA, Sarkaria JN, Samson LD | Cancer research | 27793847 | Cancer Res | 2017 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/27793847 |
| Inter-individual variation in DNA repair capacity: a need for multi-pathway functional assays to promote translational DNA repair research. | Nagel ZD, Chaim IA, Samson LD | DNA repair | 24780560 | DNA Repair (Amst) | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24780560 |
| Fluorogenic Real-Time Reporters of DNA Repair by MGMT, a Clinical Predictor of Antitumor Drug Response. | Beharry AA, Nagel ZD, Samson LD, Kool ET | PloS one | 27035132 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27035132 |
| Comprehensive Measurement of Inter-Individual Variation in DNA Repair Capacity in Healthy Individuals. | Zhai T, Mazzucato P, Ricciardi C, Christiani DC, Liang L, Samson LD, Chaim IA, Nagel ZD | medRxiv : the preprint server for health sciences | 40585106 | medRxiv | 2025 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/40585106 |
| Bioorthogonal Labeling Enables In Situ Fluorescence Imaging of Expressed Gas Vesicle Nanostructures. | Schrunk E, Dutka P, Hurt RC, Wu D, Shapiro MG | Bioconjugate chemistry | 38346316 | Bioconjug Chem | 2024 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/38346316 |
| Biomolecular actuators for genetically selective acoustic manipulation of cells. | Wu D, Baresch D, Cook C, Ma Z, Duan M, Malounda D, Maresca D, Abundo MP, Lee J, Shivaei S, Mittelstein DR, Qiu T, Fischer P, Shapiro MG | Science advances | 36812320 | Sci Adv | 2023 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/36812320 |
| Syringe-injectable Mesh Electronics for Stable Chronic Rodent Electrophysiology. | Schuhmann TG Jr, Zhou T, Hong G, Lee JM, Fu TM, Park HG, Lieber CM | Journal of visualized experiments : JoVE | 30080192 | J Vis Exp | 2018 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/30080192 |
| Nanoenabled Direct Contact Interfacing of Syringe-Injectable Mesh Electronics. | Lee JM, Hong G, Lin D, Schuhmann TG Jr, Sullivan AT, Viveros RD, Park HG, Lieber CM | Nano letters | 31361503 | Nano Lett | 2019 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/31361503 |
| A method for single-neuron chronic recording from the retina in awake mice. | Hong G, Fu TM, Qiao M, Viveros RD, Yang X, Zhou T, Lee JM, Park HG, Sanes JR, Lieber CM | Science (New York, N.Y.) | 29954976 | Science | 2018 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/29954976 |
| Mesh electronics: a new paradigm for tissue-like brain probes. | Hong G, Yang X, Zhou T, Lieber CM | Current opinion in neurobiology | 29202327 | Curr Opin Neurobiol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29202327 |
| Tissue-like Neural Probes for Understanding and Modulating the Brain. | Hong G, Viveros RD, Zwang TJ, Yang X, Lieber CM | Biochemistry | 29529359 | Biochemistry | 2018 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/29529359 |
| Bioinspired neuron-like electronics. | Yang X, Zhou T, Zwang TJ, Hong G, Zhao Y, Viveros RD, Fu TM, Gao T, Lieber CM | Nature materials | 30804509 | Nat Mater | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30804509 |
| Mesh Nanoelectronics: Seamless Integration of Electronics with Tissues. | Dai X, Hong G, Gao T, Lieber CM | Accounts of chemical research | 29381054 | Acc Chem Res | 2018 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/29381054 |
| Advanced One- and Two-Dimensional Mesh Designs for Injectable Electronics. | Viveros RD, Zhou T, Hong G, Fu TM, Lin HG, Lieber CM | Nano letters | 31075202 | Nano Lett | 2019 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/31075202 |
| Novel electrode technologies for neural recordings. | Hong G, Lieber CM | Nature reviews. Neuroscience | 30833706 | Nat Rev Neurosci | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30833706 |
| Nanowired Bioelectric Interfaces. | Tian B, Lieber CM | Chemical reviews | 30995019 | Chem Rev | 2019 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/30995019 |
| Precision electronic medicine in the brain. | Patel SR, Lieber CM | Nature biotechnology | 31477925 | Nat Biotechnol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31477925 |
| Nanowire-Enabled Bioelectronics. | Zhang A, Lee JH, Lieber CM | Nano today | 36970717 | Nano Today | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/36970717 |
| Whispering-gallery-mode emission from biological luminescent protein microcavity assemblies. | Humar M, Yun SH | Optica | 29046889 | Optica | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29046889 |
| Submicrometer perovskite plasmonic lasers at room temperature. | Cho S, Yang Y, Soljačić M, Yun SH | Science advances | 34433555 | Sci Adv | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34433555 |
| Compact Quantum-Dot Microbeads with Sub-Nanometer Emission Linewidth. | Kim KH, Dannenberg PH, Yan H, Cho S, Yun SH | Advanced functional materials | 35418816 | Adv Funct Mater | 2021 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/35418816 |
| Laser Particle Stimulated Emission Microscopy. | Cho S, Humar M, Martino N, Yun SH | Physical review letters | 27858427 | Phys Rev Lett | 2016 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/27858427 |
| Multiplexed laser particles for spatially resolved single-cell analysis. | Kwok SJJ, Martino N, Dannenberg PH, Yun SH | Light, science & applications | 31645920 | Light Sci Appl | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31645920 |
| Non-destructive mapping of stress and strain in soft thin films through sound waves. | Li GY, Gower AL, Destrade M, Yun SH | Communications physics | 37744302 | Commun Phys | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/37744302 |
| Facile layer-by-layer fabrication of semiconductor microdisk laser particles. | Dannenberg PH, Liapis AC, Martino N, Sarkar D, Kim KH, Yun SH | APL photonics | 38031595 | APL Photonics | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38031595 |
| Wavelength-encoded laser particles for massively multiplexed cell tagging. | Martino N, Kwok SJJ, Liapis AC, Forward S, Jang H, Kim HM, Wu SJ, Wu J, Dannenberg PH, Jang SJ, Lee YH, Yun SH | Nature photonics | 32231707 | Nat Photonics | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32231707 |
| Label-free histological imaging of tissues using Brillouin light scattering contrast. | Ryu S, Martino N, Kwok SJJ, Bernstein L, Yun SH | Biomedical optics express | 33796364 | Biomed Opt Express | 2021 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/33796364 |
| Author Correction: Laser particles with omnidirectional emission for cell tracking. | Tang SJ, Dannenberg PH, Liapis AC, Martino N, Zhuo Y, Xiao YF, Yun SH | Light, science & applications | 33637671 | Light Sci Appl | 2021 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/33637671 |
| Conformal Coating of Freestanding Particles by Vapor-Phase Infiltration. | Liapis AC, Subramanian A, Cho S, Kisslinger K, Nam CY, Yun SH | Advanced materials interfaces | 33708471 | Adv Mater Interfaces | 2020 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/33708471 |
| Poly(catecholamine) coated CsPbBr(3) perovskite microlasers: lasing in water and biofunctionalization. | Cho S, Yun SH | Advanced functional materials | 34539305 | Adv Funct Mater | 2021 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/34539305 |
| Supershear surface waves reveal prestress and anisotropy of soft materials. | Li GY, Feng X, Ramier A, Yun SH | Journal of the mechanics and physics of solids | 37828998 | J Mech Phys Solids | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37828998 |
| Biomaterial microlasers implantable in the cornea, skin, and blood. | Humar M, Dobravec A, Zhao X, Yun SH | Optica | 30333986 | Optica | 2017 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/30333986 |
| Spectral reading of optical resonance-encoded cells in microfluidics. | Humar M, Upadhya A, Yun SH | Lab on a chip | 28686280 | Lab Chip | 2017 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/28686280 |
| Precise photoelectrochemical tuning of semiconductor microdisk lasers. | Sarkar D, Dannenberg PH, Martino N, Kim KH, Yun SH | Advanced photonics | 38993283 | Adv Photonics | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/38993283 |
| Ultrasmall InGa(As)P Dielectric and Plasmonic Nanolasers. | Sarkar D, Cho S, Yan H, Martino N, Dannenberg PH, Yun SH | ACS nano | 37523588 | ACS Nano | 2023 Aug 22 | https://www.ncbi.nlm.nih.gov/pubmed/37523588 |
| Laser particles with omnidirectional emission for cell tracking. | Tang SJ, Dannenberg PH, Liapis AC, Martino N, Zhuo Y, Xiao YF, Yun SH | Light, science & applications | 33495436 | Light Sci Appl | 2021 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/33495436 |
| Laser particle activated cell sorting in microfluidics. | Dannenberg PH, Kang J, Martino N, Kashiparekh A, Forward S, Wu J, Liapis AC, Wang J, Yun SH | Lab on a chip | 35621381 | Lab Chip | 2022 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/35621381 |
| Light in diagnosis, therapy and surgery. | Yun SH, Kwok SJJ | Nature biomedical engineering | 28649464 | Nat Biomed Eng | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28649464 |
| Droplet microfluidic generation of a million optical microparticle barcodes. | Dannenberg PH, Wang J, Zhuo Y, Cho S, Kim KH, Yun SH | Optics express | 34808870 | Opt Express | 2021 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/34808870 |
| High-dimensional multi-pass flow cytometry via spectrally encoded cellular barcoding. | Kwok SJJ, Forward S, Fahlberg MD, Assita ER, Cosgriff S, Lee SH, Abbott GR, Zhu H, Minasian NH, Vote AS, Martino N, Yun SH | Nature biomedical engineering | 38036616 | Nat Biomed Eng | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38036616 |
| Fast label-free multilayered histology-like imaging of human breast cancer by photoacoustic microscopy. | Wong TTW, Zhang R, Hai P, Zhang C, Pleitez MA, Aft RL, Novack DV, Wang LV | Science advances | 28560329 | Sci Adv | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28560329 |
| Focusing light through scattering media by polarization modulation based generalized digital optical phase conjugation. | Yang J, Shen Y, Liu Y, Hemphill AS, Wang LV | Applied physics letters | 29203931 | Appl Phys Lett | 2017 Nov 13 | https://www.ncbi.nlm.nih.gov/pubmed/29203931 |
| Calibration-free absolute quantification of particle concentration by statistical analyses of photoacoustic signals in vivo. | Zhou Y, Yao J, Maslov KI, Wang LV | Journal of biomedical optics | 24589987 | J Biomed Opt | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24589987 |
| Motionless volumetric photoacoustic microscopy with spatially invariant resolution. | Yang J, Gong L, Xu X, Hai P, Shen Y, Suzuki Y, Wang LV | Nature communications | 28974681 | Nat Commun | 2017 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/28974681 |
| Single-breath-hold photoacoustic computed tomography of the breast. | Lin L, Hu P, Shi J, Appleton CM, Maslov K, Li L, Zhang R, Wang LV | Nature communications | 29907740 | Nat Commun | 2018 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/29907740 |
| The distinct roles of calcium in rapid control of neuronal glycolysis and the tricarboxylic acid cycle. | Díaz-García CM, Meyer DJ, Nathwani N, Rahman M, Martínez-François JR, Yellen G | eLife | 33555254 | Elife | 2021 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/33555254 |
| Integration of Multitargeted Polymer-Based Contrast Agents with Photoacoustic Computed Tomography: An Imaging Technique to Visualize Breast Cancer Intratumor Heterogeneity. | Li L, Patil D, Petruncio G, Harnden KK, Somasekharan JV, Paige M, Wang LV, Salvador-Morales C | ACS nano | 33464827 | ACS Nano | 2021 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/33464827 |
| Photoacoustically guided wavefront shaping for enhanced optical focusing in scattering media. | Lai P, Wang L, Tay JW, Wang LV | Nature photonics | 25914725 | Nat Photonics | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25914725 |
| Photoacoustic microscopy: superdepth, superresolution, and superb contrast. | Yao J, Song L, Wang LV | IEEE pulse | 25974913 | IEEE Pulse | 2015 May-Jun | https://www.ncbi.nlm.nih.gov/pubmed/25974913 |
| Ultrasonic-heating-encoded photoacoustic tomography with virtually augmented detection view. | Wang L, Li G, Xia J, Wang LV | Optica | 25984555 | Optica | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25984555 |
| In vivo photoacoustic tomography of myoglobin oxygen saturation. | Lin L, Yao J, Li L, Wang LV | Journal of biomedical optics | 26719943 | J Biomed Opt | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26719943 |
| Photoacoustic tomography of vascular compliance in humans. | Hai P, Zhou Y, Liang J, Li C, Wang LV | Journal of biomedical optics | 26720875 | J Biomed Opt | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26720875 |
| Dual-Modality Photoacoustic and Ultrasound Imaging System for Noninvasive Sentinel Lymph Node Detection in Patients with Breast Cancer. | Garcia-Uribe A, Erpelding TN, Krumholz A, Ke H, Maslov K, Appleton C, Margenthaler JA, Wang LV | Scientific reports | 26510774 | Sci Rep | 2015 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/26510774 |
| Cuffing-based photoacoustic flowmetry in humans in the optical diffusive regime. | Zhou Y, Liang J, Wang LV | Journal of biophotonics | 26515158 | J Biophotonics | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26515158 |
| Multiscale Functional and Molecular Photoacoustic Tomography. | Yao J, Xia J, Wang LV | Ultrasonic imaging | 25933617 | Ultrason Imaging | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25933617 |
| Enhancement of photoacoustic tomography by ultrasonic computed tomography based on optical excitation of elements of a full-ring transducer array. | Xia J, Huang C, Maslov K, Anastasio MA, Wang LV | Optics letters | 24104670 | Opt Lett | 2013 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/24104670 |
| Time-reversed ultrasonically encoded optical focusing using two ultrasonic transducers for improved ultrasonic axial resolution. | Yang Q, Xu X, Lai P, Xu D, Wang LV | Journal of biomedical optics | 24194060 | J Biomed Opt | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24194060 |
| Near-infrared optical-resolution photoacoustic microscopy. | Hai P, Yao J, Maslov KI, Zhou Y, Wang LV | Optics letters | 25166107 | Opt Lett | 2014 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/25166107 |
| Amplitude-masked photoacoustic wavefront shaping and application in flowmetry. | Tay JW, Liang J, Wang LV | Optics letters | 25360912 | Opt Lett | 2014 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/25360912 |
| Label-free photoacoustic nanoscopy. | Danielli A, Maslov K, Garcia-Uribe A, Winkler AM, Li C, Wang L, Chen Y, Dorn GW 2nd, Wang LV | Journal of biomedical optics | 25104412 | J Biomed Opt | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25104412 |
| Microcirculatory changes identified by photoacoustic microscopy in patients with complex regional pain syndrome type I after stellate ganglion blocks. | Zhou Y, Yi X, Xing W, Hu S, Maslov KI, Wang LV | Journal of biomedical optics | 25144451 | J Biomed Opt | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25144451 |
| Reversibly switchable fluorescence microscopy with enhanced resolution and image contrast. | Yao J, Shcherbakova DM, Li C, Krumholz A, Lorca RA, Reinl E, England SK, Verkhusha VV, Wang LV | Journal of biomedical optics | 25144452 | J Biomed Opt | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25144452 |
| Breakthrough in Photonics 2013: Photoacoustic Tomography in Biomedicine. | Yao J, Wang LV | IEEE photonics journal | 25383143 | IEEE Photonics J | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25383143 |
| Microvascular quantification based on contour-scanning photoacoustic microscopy. | Yeh C, Soetikno B, Hu S, Maslov KI, Wang LV | Journal of biomedical optics | 25223708 | J Biomed Opt | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25223708 |
| In vivo optically encoded photoacoustic flowgraphy. | Zhang R, Wang L, Yao J, Yeh CH, Wang LV | Optics letters | 24978744 | Opt Lett | 2014 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/24978744 |
| Snapshot Photoacoustic Topography Through an Ergodic Relay for High-throughput Imaging of Optical Absorption. | Li Y, Li L, Zhu L, Maslov K, Shi J, Hu P, Bo E, Yao J, Liang J, Wang L, Wang LV | Nature photonics | 34178097 | Nat Photonics | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34178097 |
| Focusing light through scattering media by full-polarization digital optical phase conjugation. | Shen Y, Liu Y, Ma C, Wang LV | Optics letters | 26977651 | Opt Lett | 2016 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/26977651 |
| Real-time frequency-encoded spatiotemporal focusing through scattering media using a programmable 2D ultrafine optical frequency comb. | Wei X, Shen Y, Jing JC, Hemphill AS, Yang C, Xu S, Yang Z, Wang LV | Science advances | 32128401 | Sci Adv | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32128401 |
| Micromachined Silicon Parallel Acoustic Delay Lines as Time Delayed Ultrasound Detector Array for Real-Time Photoacoustic Tomography. | Cho Y, Chang CC, Wang LV, Zou J | Journal of optics (2010) | 31998470 | J Opt | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/31998470 |
| Picosecond-resolution phase-sensitive imaging of transparent objects in a single shot. | Kim T, Liang J, Zhu L, Wang LV | Science advances | 32010772 | Sci Adv | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/32010772 |
| Angular-spectrum modeling of focusing light inside scattering media by optical phase conjugation. | Yang J, Li J, He S, Wang LV | Optica | 32025534 | Optica | 2019 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/32025534 |
| Nonlinear light-sheet fluorescence microscopy by photobleaching imprinting. | Gao L, Zhu L, Li C, Wang LV | Journal of the Royal Society, Interface | 24478278 | J R Soc Interface | 2014 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/24478278 |
| Photoacoustic thermography of tissue. | Ke H, Tai S, Wang LV | Journal of biomedical optics | 24522803 | J Biomed Opt | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24522803 |
| Photoacoustic and optical coherence tomography of epilepsy with high temporal and spatial resolution and dual optical contrasts. | Tsytsarev V, Rao B, Maslov KI, Li L, Wang LV | Journal of neuroscience methods | 23603664 | J Neurosci Methods | 2013 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/23603664 |
| Reflection-mode multifocal optical-resolution photoacoustic microscopy. | Li G, Maslov KI, Wang LV | Journal of biomedical optics | 23446704 | J Biomed Opt | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23446704 |
| A review of snapshot multidimensional optical imaging: measuring photon tags in parallel. | Gao L, Wang LV | Physics reports | 27134340 | Phys Rep | 2016 Feb 29 | https://www.ncbi.nlm.nih.gov/pubmed/27134340 |
| Bit-efficient, sub-millisecond wavefront measurement using a lock-in camera for time-reversal based optical focusing inside scattering media. | Liu Y, Ma C, Shen Y, Wang LV | Optics letters | 27192226 | Opt Lett | 2016 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/27192226 |
| In vivo photoacoustic microscopy of human cuticle microvasculature with single-cell resolution. | Hsu HC, Wang L, Wang LV | Journal of biomedical optics | 27207113 | J Biomed Opt | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/27207113 |
| Optical focusing deep inside dynamic scattering media with near-infrared time-reversed ultrasonically encoded (TRUE) light. | Liu Y, Lai P, Ma C, Xu X, Grabar AA, Wang LV | Nature communications | 25556918 | Nat Commun | 2015 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/25556918 |
| Single-shot compressed ultrafast photography at one hundred billion frames per second. | Gao L, Liang J, Li C, Wang LV | Nature | 25471883 | Nature | 2014 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/25471883 |
| Handheld optical-resolution photoacoustic microscopy. | Lin L, Zhang P, Xu S, Shi J, Li L, Yao J, Wang L, Zou J, Wang LV | Journal of biomedical optics | 27775746 | J Biomed Opt | 2017 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/27775746 |
| Single-shot real-time femtosecond imaging of temporal focusing. | Liang J, Zhu L, Wang LV | Light, science & applications | 30839588 | Light Sci Appl | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30839588 |
| Dry coupling for whole-body small-animal photoacoustic computed tomography. | Yeh C, Li L, Zhu L, Xia J, Li C, Chen W, Garcia-Uribe A, Maslov KI, Wang LV | Journal of biomedical optics | 28241305 | J Biomed Opt | 2017 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/28241305 |
| Space- and intensity-constrained reconstruction for compressed ultrafast photography. | Zhu L, Chen Y, Liang J, Xu Q, Gao L, Ma C, Wang LV | Optica | 28775997 | Optica | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28775997 |
| Slow-sound photoacoustic microscopy. | Zhang C, Zhou Y, Li C, Wang LV | Applied physics letters | 23696693 | Appl Phys Lett | 2013 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/23696693 |
| Improving limited-view photoacoustic tomography with an acoustic reflector. | Huang B, Xia J, Maslov K, Wang LV | Journal of biomedical optics | 24285421 | J Biomed Opt | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24285421 |
| High-resolution photoacoustic tomography of resting-state functional connectivity in the mouse brain. | Nasiriavanaki M, Xia J, Wan H, Bauer AQ, Culver JP, Wang LV | Proceedings of the National Academy of Sciences of the United States of America | 24367107 | Proc Natl Acad Sci U S A | 2014 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/24367107 |
| Ultrasonically encoded wavefront shaping for focusing into random media. | Tay JW, Lai P, Suzuki Y, Wang LV | Scientific reports | 24472822 | Sci Rep | 2014 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/24472822 |
| Ultrasound-heated photoacoustic flowmetry. | Wang L, Yao J, Maslov KI, Xing W, Wang LV | Journal of biomedical optics | 24194064 | J Biomed Opt | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24194064 |
| Grueneisen relaxation photoacoustic microscopy in vivo. | Ma J, Shi J, Hai P, Zhou Y, Wang LV | Journal of biomedical optics | 27272096 | J Biomed Opt | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/27272096 |
| Multiscale photoacoustic tomography using reversibly switchable bacterial phytochrome as a near-infrared photochromic probe. | Yao J, Kaberniuk AA, Li L, Shcherbakova DM, Zhang R, Wang L, Li G, Verkhusha VV, Wang LV | Nature methods | 26550774 | Nat Methods | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26550774 |
| Photoacoustic tomography imaging and estimation of oxygen saturation of hemoglobin in ocular tissue of rabbits. | Hennen SN, Xing W, Shui YB, Zhou Y, Kalishman J, Andrews-Kaminsky LB, Kass MA, Beebe DC, Maslov KI, Wang LV | Experimental eye research | 26048477 | Exp Eye Res | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26048477 |
| Photoacoustic microscopy of arteriovenous shunts and blood diffusion in early-stage tumors. | Yeh C, Liang J, Zhou Y, Hu S, Sohn RE, Arbeit JM, Wang LV | Journal of biomedical optics | 26882446 | J Biomed Opt | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26882446 |
| Optical-resolution photoacoustic endomicroscopy in vivo. | Yang JM, Li C, Chen R, Rao B, Yao J, Yeh CH, Danielli A, Maslov K, Zhou Q, Shung KK, Wang LV | Biomedical optics express | 25798315 | Biomed Opt Express | 2015 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/25798315 |
| Tripling the detection view of high-frequency linear-array-based photoacoustic computed tomography by using two planar acoustic reflectors. | Li G, Xia J, Wang K, Maslov K, Anastasio MA, Wang LV | Quantitative imaging in medicine and surgery | 25694954 | Quant Imaging Med Surg | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25694954 |
| High-sensitivity ultrasound-modulated optical tomography with a photorefractive polymer. | Suzuki Y, Lai P, Xu X, Wang L | Optics letters | 23503253 | Opt Lett | 2013 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/23503253 |
| Analog time-reversed ultrasonically encoded light focusing inside scattering media with a 33,000× optical power gain. | Ma C, Xu X, Wang LV | Scientific reports | 25753905 | Sci Rep | 2015 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/25753905 |
| Three-dimensional arbitrary trajectory scanning photoacoustic microscopy. | Yeh C, Soetikno B, Hu S, Maslov KI, Wang LV | Journal of biophotonics | 25077689 | J Biophotonics | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25077689 |
| Sensitivity of photoacoustic microscopy. | Yao J, Wang LV | Photoacoustics | 25302158 | Photoacoustics | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25302158 |
| Frequency-swept time-reversed ultrasonically encoded optical focusing. | Suzuki Y, Wang LV | Applied physics letters | 25425744 | Appl Phys Lett | 2014 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/25425744 |
| Photoacoustic Brain Imaging: from Microscopic to Macroscopic Scales. | Yao J, Wang LV | Neurophotonics | 25401121 | Neurophotonics | 2014 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/25401121 |
| Optical drug monitoring: photoacoustic imaging of nanosensors to monitor therapeutic lithium in vivo. | Cash KJ, Li C, Xia J, Wang LV, Clark HA | ACS nano | 25588028 | ACS Nano | 2015 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/25588028 |
| Fully motorized optical-resolution photoacoustic microscopy. | Li L, Yeh C, Hu S, Wang L, Soetikno BT, Chen R, Zhou Q, Shung KK, Maslov KI, Wang LV | Optics letters | 24686689 | Opt Lett | 2014 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/24686689 |
| Plasmonics-enhanced and optically modulated delivery of gold nanostars into brain tumor. | Yuan H, Wilson CM, Xia J, Doyle SL, Li S, Fales AM, Liu Y, Ozaki E, Mulfaul K, Hanna G, Palmer GM, Wang LV, Grant GA, Vo-Dinh T | Nanoscale | 24619405 | Nanoscale | 2014 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/24619405 |
| Calibration-free structured-illumination photoacoustic flowgraphy of transverse flow in scattering media. | Yao J, Gilson RC, Maslov KI, Wang L, Wang LV | Journal of biomedical optics | 24718385 | J Biomed Opt | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24718385 |
| Multiview Hilbert transformation in full-ring transducer array-based photoacoustic computed tomography. | Li L, Zhu L, Shen Y, Wang LV | Journal of biomedical optics | 28745385 | J Biomed Opt | 2017 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/28745385 |
| Use of a single xenon flash lamp for photoacoustic computed tomography of multiple-centimeter-thick biological tissue ex vivo and a whole mouse body in vivo. | Wong TT, Zhou Y, Garcia-Uribe A, Li L, Maslov K, Lin L, Wang LV | Journal of biomedical optics | 27775747 | J Biomed Opt | 2017 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/27775747 |
| Single-exposure optical focusing inside scattering media using binarized time-reversed adapted perturbation. | Ma C, Zhou F, Liu Y, Wang LV | Optica | 30221184 | Optica | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30221184 |
| In vivo label-free photoacoustic flow cytography and on-the-spot laser killing of single circulating melanoma cells. | He Y, Wang L, Shi J, Yao J, Li L, Zhang R, Huang CH, Zou J, Wang LV | Scientific reports | 28000788 | Sci Rep | 2016 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/28000788 |
| High-resolution, high-contrast mid-infrared imaging of fresh biological samples with ultraviolet-localized photoacoustic microscopy. | Shi J, Wong TTW, He Y, Li L, Zhang R, Yung CS, Hwang J, Maslov K, Wang LV | Nature photonics | 31440304 | Nat Photonics | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31440304 |
| Synthetic Bessel light needle for extended depth-of-field microscopy. | Yang J, Gong L, Shen Y, Wang LV | Applied physics letters | 30449893 | Appl Phys Lett | 2018 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/30449893 |
| Transvaginal fast-scanning optical-resolution photoacoustic endoscopy. | Qu Y, Li C, Shi J, Chen R, Xu S, Rafsanjani H, Maslov K, Krigman H, Garvey L, Hu P, Zhao P, Meyers K, Diveley E, Pizzella S, Muench L, Punyamurthy N, Goldstein N, Onwumere O, Alisio M, Meyenburg K, Maynard J, Helm K, Slaughter J, Barber S, Burger T, Kramer C, Chubiz J, Anderson M, McCarthy R, England SK, Macones GA, Zhou Q, Shung KK, Zou J, Stout MJ, Tuuli M, Wang LV | Journal of biomedical optics | 30520276 | J Biomed Opt | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30520276 |
| Single-shot stereo-polarimetric compressed ultrafast photography for light-speed observation of high-dimensional optical transients with picosecond resolution. | Liang J, Wang P, Zhu L, Wang LV | Nature communications | 33067438 | Nat Commun | 2020 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/33067438 |
| High-speed single-shot optical focusing through dynamic scattering media with full-phase wavefront shaping. | Hemphill AS, Shen Y, Liu Y, Wang LV | Applied physics letters | 29249832 | Appl Phys Lett | 2017 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/29249832 |
| Label-free automated three-dimensional imaging of whole organs by microtomy-assisted photoacoustic microscopy. | Wong TTW, Zhang R, Zhang C, Hsu HC, Maslov KI, Wang L, Shi J, Chen R, Shung KK, Zhou Q, Wang LV | Nature communications | 29123109 | Nat Commun | 2017 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/29123109 |
| High-resolution deep functional imaging of the whole mouse brain by photoacoustic computed tomography in vivo. | Zhang P, Li L, Lin L, Hu P, Shi J, He Y, Zhu L, Zhou Y, Wang LV | Journal of biophotonics | 28635056 | J Biophotonics | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28635056 |
| Single-impulse Panoramic Photoacoustic Computed Tomography of Small-animal Whole-body Dynamics at High Spatiotemporal Resolution. | Li L, Zhu L, Ma C, Lin L, Yao J, Wang L, Maslov K, Zhang R, Chen W, Shi J, Wang LV | Nature biomedical engineering | 29333331 | Nat Biomed Eng | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29333331 |
| Multifocal photoacoustic microscopy using a single-element ultrasonic transducer through an ergodic relay. | Li Y, Wong TTW, Shi J, Hsu HC, Wang LV | Light, science & applications | 32793336 | Light Sci Appl | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32793336 |
| Single-shot ultrafast optical imaging. | Liang J, Wang LV | Optica | 30820445 | Optica | 2018 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/30820445 |
| A microrobotic system guided by photoacoustic computed tomography for targeted navigation in intestines in vivo. | Wu Z, Li L, Yang Y, Hu P, Li Y, Yang SY, Wang LV, Gao W | Science robotics | 32632399 | Sci Robot | 2019 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/32632399 |
| Noninvasive Determination of Melanoma Depth using a Handheld Photoacoustic Probe. | Zhou Y, Tripathi SV, Rosman I, Ma J, Hai P, Linette GP, Council ML, Fields RC, Wang LV, Cornelius LA | The Journal of investigative dermatology | 28163070 | J Invest Dermatol | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28163070 |
| Delivery of AAV for Expression of Fluorescent Biosensors in Juvenile Mouse Hippocampus. | Díaz-García CM, Nathwani N, Martínez-François JR, Yellen G | Bio-protocol | 35087918 | Bio Protoc | 2021 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/35087918 |
| Photoacoustic lymphatic imaging with high spatial-temporal resolution. | Martel C, Yao J, Huang CH, Zou J, Randolph GJ, Wang LV | Journal of biomedical optics | 25408958 | J Biomed Opt | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25408958 |
| In vivo deep brain imaging of rats using oral-cavity illuminated photoacoustic computed tomography. | Lin L, Xia J, Wong TT, Li L, Wang LV | Journal of biomedical optics | 25611865 | J Biomed Opt | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25611865 |
| Handheld photoacoustic probe to detect both melanoma depth and volume at high speed in vivo. | Zhou Y, Li G, Zhu L, Li C, Cornelius LA, Wang LV | Journal of biophotonics | 25676898 | J Biophotonics | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25676898 |
| Nonlinear photoacoustic spectroscopy of hemoglobin. | Danielli A, Maslov K, Favazza CP, Xia J, Wang LV | Applied physics letters | 26045627 | Appl Phys Lett | 2015 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/26045627 |
| Optical sectioning by wide-field photobleaching imprinting microscopy. | Li C, Gao L, Liu Y, Wang LV | Applied physics letters | 24273331 | Appl Phys Lett | 2013 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/24273331 |
| Ultrasonically encoded photoacoustic flowgraphy in biological tissue. | Wang L, Xia J, Yao J, Maslov KI, Wang LV | Physical review letters | 24289689 | Phys Rev Lett | 2013 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/24289689 |
| Focused fluorescence excitation with time-reversed ultrasonically encoded light and imaging in thick scattering media. | Lai P, Suzuki Y, Xu X, Wang LV | Laser physics letters | 24465244 | Laser Phys Lett | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24465244 |
| Photoacoustic measurement of the Grüneisen parameter of tissue. | Yao DK, Zhang C, Maslov K, Wang LV | Journal of biomedical optics | 24474512 | J Biomed Opt | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24474512 |
| Catheter-based photoacoustic endoscope. | Yang JM, Li C, Chen R, Zhou Q, Shung KK, Wang LV | Journal of biomedical optics | 24887743 | J Biomed Opt | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24887743 |
| Continuous scanning of a time-reversed ultrasonically encoded optical focus by reflection-mode digital phase conjugation. | Suzuki Y, Tay JW, Yang Q, Wang LV | Optics letters | 24978506 | Opt Lett | 2014 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/24978506 |
| Optical-resolution photoacoustic microscopy: auscultation of biological systems at the cellular level. | Hu S, Wang LV | Biophysical journal | 23972836 | Biophys J | 2013 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/23972836 |
| Cross-correlation-based transverse flow measurements using optical resolution photoacoustic microscopy with a digital micromirror device. | Liang J, Zhou Y, Maslov KI, Wang LV | Journal of biomedical optics | 24002191 | J Biomed Opt | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/24002191 |
| Noise-equivalent sensitivity of photoacoustics. | Winkler AM, Maslov K, Wang LV | Journal of biomedical optics | 24026425 | J Biomed Opt | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/24026425 |
| Urogenital photoacoustic endoscope. | Li C, Yang JM, Chen R, Yeh CH, Zhu L, Maslov K, Zhou Q, Shung KK, Wang LV | Optics letters | 24690816 | Opt Lett | 2014 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/24690816 |
| Optical clearing-aided photoacoustic microscopy with enhanced resolution and imaging depth. | Zhou Y, Yao J, Wang LV | Optics letters | 23939121 | Opt Lett | 2013 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/23939121 |
| Structured-illumination photoacoustic Doppler flowmetry of axial flow in homogeneous scattering media. | Zhang R, Yao J, Maslov KI, Wang LV | Applied physics letters | 24065864 | Appl Phys Lett | 2013 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/24065864 |
| Calibration-free in vivo transverse blood flowmetry based on cross correlation of slow time profiles from photoacoustic microscopy. | Zhou Y, Liang J, Maslov KI, Wang LV | Optics letters | 24081077 | Opt Lett | 2013 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/24081077 |
| Small-animal whole-body photoacoustic tomography: a review. | Xia J, Wang LV | IEEE transactions on bio-medical engineering | 24108456 | IEEE Trans Biomed Eng | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24108456 |
| Label-free high-throughput photoacoustic tomography of suspected circulating melanoma tumor cells in patients in vivo. | Hai P, Qu Y, Li Y, Zhu L, Shmuylovich L, Cornelius LA, Wang LV | Journal of biomedical optics | 32170857 | J Biomed Opt | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32170857 |
| Dual-view photoacoustic microscopy for quantitative cell nuclear imaging. | Cai D, Wong TTW, Zhu L, Shi J, Chen SL, Wang LV | Optics letters | 30320772 | Opt Lett | 2018 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/30320772 |
| A practical guide to photoacoustic tomography in the life sciences. | Wang LV, Yao J | Nature methods | 27467726 | Nat Methods | 2016 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/27467726 |
| Dual-axis illumination for virtually augmenting the detection view of optical-resolution photoacoustic microscopy. | Hsu HC, Li L, Yao J, Wong TTW, Shi J, Chen R, Zhou Q, Wang L | Journal of biomedical optics | 29981225 | J Biomed Opt | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29981225 |
| Small near-infrared photochromic protein for photoacoustic multi-contrast imaging and detection of protein interactions in vivo. | Li L, Shemetov AA, Baloban M, Hu P, Zhu L, Shcherbakova DM, Zhang R, Shi J, Yao J, Wang LV, Verkhusha VV | Nature communications | 30013153 | Nat Commun | 2018 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/30013153 |
| Lock-in camera based heterodyne holography for ultrasound-modulated optical tomography inside dynamic scattering media. | Liu Y, Shen Y, Ma C, Shi J, Wang LV | Applied physics letters | 27493275 | Appl Phys Lett | 2016 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/27493275 |
| Label-free photoacoustic tomography of whole mouse brain structures ex vivo. | Li L, Xia J, Li G, Garcia-Uribe A, Sheng Q, Anastasio MA, Wang LV | Neurophotonics | 29181425 | Neurophotonics | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29181425 |
| Bessel-beam Grueneisen relaxation photoacoustic microscopy with extended depth of field. | Shi J, Wang L, Noordam C, Wang LV | Journal of biomedical optics | 26524679 | J Biomed Opt | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26524679 |
| Focusing light inside live tissue using reversibly switchable bacterial phytochrome as a genetically encoded photochromic guide star. | Yang J, Li L, Shemetov AA, Lee S, Zhao Y, Liu Y, Shen Y, Li J, Oka Y, Verkhusha VV, Wang LV | Science advances | 31844671 | Sci Adv | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31844671 |
| Label-free photoacoustic microscopy of peripheral nerves. | Matthews TP, Zhang C, Yao DK, Maslov K, Wang LV | Journal of biomedical optics | 24395587 | J Biomed Opt | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24395587 |
| Photoacoustic microscopy and computed tomography: from bench to bedside. | Wang LV, Gao L | Annual review of biomedical engineering | 24905877 | Annu Rev Biomed Eng | 2014 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/24905877 |
| In vivo photoacoustic flowmetry at depths of the diffusive regime based on saline injection. | Zhou Y, Poudel J, Li G, Wang LV | Journal of biomedical optics | 26267364 | J Biomed Opt | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26267364 |
| High-speed alignment optimization of digital optical phase conjugation systems based on autocovariance analysis in conjunction with orthonormal rectangular polynomials. | Hemphill AS, Shen Y, Hwang J, Wang LV | Journal of biomedical optics | 30156064 | J Biomed Opt | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30156064 |
| Handheld photoacoustic microscopy to detect melanoma depth in vivo. | Zhou Y, Xing W, Maslov KI, Cornelius LA, Wang LV | Optics letters | 25121860 | Opt Lett | 2014 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/25121860 |
| Single-shot photoacoustic imaging with single-element transducer through a spatiotemporal encoder. | Zhao Y, Wang LV | Journal of biomedical optics | 37065647 | J Biomed Opt | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/37065647 |
| Photoacoustic computed tomography of human extremities. | Wray P, Lin L, Hu P, Wang LV | Journal of biomedical optics | 30784244 | J Biomed Opt | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30784244 |
| Dichroism-sensitive photoacoustic computed tomography. | Qu Y, Li L, Shen Y, Wei X, Wong TTW, Hu P, Yao J, Maslov K, Wang LV | Optica | 30820444 | Optica | 2018 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/30820444 |
| Real-time observation and control of optical chaos. | Fan L, Yan X, Wang H, Wang LV | Science advances | 33523874 | Sci Adv | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33523874 |
| Deep-tissue photoacoustic tomography of Förster resonance energy transfer. | Wang Y, Xia J, Wang LV | Journal of biomedical optics | 23884608 | J Biomed Opt | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23884608 |
| Intracellular temperature mapping with fluorescence-assisted photoacoustic-thermometry. | Gao L, Zhang C, Li C, Wang LV | Applied physics letters | 23825801 | Appl Phys Lett | 2013 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/23825801 |
| Random-access optical-resolution photoacoustic microscopy using a digital micromirror device. | Liang J, Zhou Y, Winkler AW, Wang L, Maslov KI, Li C, Wang LV | Optics letters | 23903111 | Opt Lett | 2013 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/23903111 |
| Calibration-free quantification of absolute oxygen saturation based on the dynamics of photoacoustic signals. | Xia J, Danielli A, Liu Y, Wang L, Maslov K, Wang LV | Optics letters | 23903146 | Opt Lett | 2013 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/23903146 |
| Photobleaching imprinting microscopy: seeing clearer and deeper. | Gao L, Garcia-Uribe A, Liu Y, Li C, Wang LV | Journal of cell science | 24317295 | J Cell Sci | 2014 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/24317295 |
| Photoimprint photoacoustic microscopy for three-dimensional label-free subdiffraction imaging. | Yao J, Wang L, Li C, Zhang C, Wang LV | Physical review letters | 24483902 | Phys Rev Lett | 2014 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/24483902 |
| Spatially Fourier-encoded photoacoustic microscopy using a digital micromirror device. | Liang J, Gao L, Li C, Wang LV | Optics letters | 24487832 | Opt Lett | 2014 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/24487832 |
| Photoacoustic recovery after photothermal bleaching in living cells. | Li C, Zhang C, Gao L, Garcia-Uribe A, Wang LV | Journal of biomedical optics | 24089253 | J Biomed Opt | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24089253 |
| Hybridized wavefront shaping for high-speed, high-efficiency focusing through dynamic diffusive media. | Hemphill AS, Tay JW, Wang LV | Journal of biomedical optics | 27626770 | J Biomed Opt | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/27626770 |
| Dependence of optical scattering from Intralipid in gelatin-gel based tissue-mimicking phantoms on mixing temperature and time. | Lai P, Xu X, Wang LV | Journal of biomedical optics | 24604534 | J Biomed Opt | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24604534 |
| Focusing light through biological tissue and tissue-mimicking phantoms up to 9.6 cm in thickness with digital optical phase conjugation. | Shen Y, Liu Y, Ma C, Wang LV | Journal of biomedical optics | 27533439 | J Biomed Opt | 2016 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/27533439 |
| Tutorial on photoacoustic tomography. | Zhou Y, Yao J, Wang LV | Journal of biomedical optics | 27086868 | J Biomed Opt | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27086868 |
| Single-shot real-time video recording of a photonic Mach cone induced by a scattered light pulse. | Liang J, Ma C, Zhu L, Chen Y, Gao L, Wang LV | Science advances | 28116357 | Sci Adv | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28116357 |
| Label-free cell nuclear imaging by Grüneisen relaxation photoacoustic microscopy. | Liu X, Wong TTW, Shi J, Ma J, Yang Q, Wang LV | Optics letters | 29444034 | Opt Lett | 2018 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/29444034 |
| Sub-Nyquist sampling boosts targeted light transport through opaque scattering media. | Shen Y, Liu Y, Ma C, Wang LV | Optica | 28670607 | Optica | 2017 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/28670607 |
| Quantitative photoacoustic elastography in humans. | Hai P, Zhou Y, Gong L, Wang LV | Journal of biomedical optics | 27304419 | J Biomed Opt | 2016 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/27304419 |
| High-throughput, label-free, single-cell photoacoustic microscopy of intratumoral metabolic heterogeneity. | Hai P, Imai T, Xu S, Zhang R, Aft RL, Zou J, Wang LV | Nature biomedical engineering | 30936431 | Nat Biomed Eng | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30936431 |
| High-speed label-free functional photoacoustic microscopy of mouse brain in action. | Yao J, Wang L, Yang JM, Maslov KI, Wong TT, Li L, Huang CH, Zou J, Wang LV | Nature methods | 25822799 | Nat Methods | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25822799 |
| Three-dimensional photoacoustic endoscopic imaging of the rabbit esophagus. | Yang JM, Favazza C, Yao J, Chen R, Zhou Q, Shung KK, Wang LV | PloS one | 25874640 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25874640 |
| Noninvasive photoacoustic microscopy of methemoglobin in vivo. | Tang M, Zhou Y, Zhang R, Wang LV | Journal of biomedical optics | 25760655 | J Biomed Opt | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25760655 |
| Multiview Hilbert transformation for full-view photoacoustic computed tomography using a linear array. | Li G, Li L, Zhu L, Xia J, Wang LV | Journal of biomedical optics | 26112369 | J Biomed Opt | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26112369 |
| Photoacoustic elastography. | Hai P, Yao J, Li G, Li C, Wang LV | Optics letters | 26872173 | Opt Lett | 2016 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/26872173 |
| Recent progress in photoacoustic molecular imaging. | Yao J, Wang LV | Current opinion in chemical biology | 29631120 | Curr Opin Chem Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29631120 |
| Focusing light inside dynamic scattering media with millisecond digital optical phase conjugation. | Liu Y, Ma C, Shen Y, Shi J, Wang LV | Optica | 28815194 | Optica | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28815194 |
| Time-reversed ultrasonically encoded optical focusing through highly scattering ex vivo human cataractous lenses. | Liu Y, Shen Y, Ruan H, Brodie FL, Wong TTW, Yang C, Wang LV | Journal of biomedical optics | 29322749 | J Biomed Opt | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29322749 |
| In vivo characterization of connective tissue remodeling using infrared photoacoustic spectra. | Qu Y, Hu P, Shi J, Maslov K, Zhao P, Li C, Ma J, Garcia-Uribe A, Meyers K, Diveley E, Pizzella S, Muench L, Punyamurthy N, Goldstein N, Onwumere O, Alisio M, Meyenburg K, Maynard J, Helm K, Altieri E, Slaughter J, Barber S, Burger T, Kramer C, Chubiz J, Anderson M, McCarthy R, England SK, Macones GA, Stout MJ, Tuuli M, Wang LV | Journal of biomedical optics | 30520275 | J Biomed Opt | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30520275 |
| In vivo superresolution photoacoustic computed tomography by localization of single dyed droplets. | Zhang P, Li L, Lin L, Shi J, Wang LV | Light, science & applications | 30962922 | Light Sci Appl | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30962922 |
| Grueneisen relaxation photoacoustic microscopy. | Wang L, Zhang C, Wang LV | Physical review letters | 25379919 | Phys Rev Lett | 2014 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/25379919 |
| Integrated photoacoustic, confocal, and two-photon microscope. | Rao B, Soto F, Kerschensteiner D, Wang LV | Journal of biomedical optics | 24589986 | J Biomed Opt | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24589986 |
| Photoacoustic tomography: principles and advances. | Xia J, Yao J, Wang LV | Electromagnetic waves (Cambridge, Mass.) | 25642127 | Electromagn Waves (Camb) | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25642127 |
| Absolute photoacoustic thermometry in deep tissue. | Yao J, Ke H, Tai S, Zhou Y, Wang LV | Optics letters | 24322224 | Opt Lett | 2013 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/24322224 |
| Wide-field two-dimensional multifocal optical-resolution photoacoustic-computed microscopy. | Xia J, Li G, Wang L, Nasiriavanaki M, Maslov K, Engelbach JA, Garbow JR, Wang LV | Optics letters | 24322226 | Opt Lett | 2013 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/24322226 |
| Retrospective respiration-gated whole-body photoacoustic computed tomography of mice. | Xia J, Chen W, Maslov K, Anastasio MA, Wang LV | Journal of biomedical optics | 24395586 | J Biomed Opt | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24395586 |
| Multicontrast photoacoustic in vivo imaging using near-infrared fluorescent proteins. | Krumholz A, Shcherbakova DM, Xia J, Wang LV, Verkhusha VV | Scientific reports | 24487319 | Sci Rep | 2014 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/24487319 |
| Graphene-based contrast agents for photoacoustic and thermoacoustic tomography. | Lalwani G, Cai X, Nie L, Wang LV, Sitharaman B | Photoacoustics | 24490141 | Photoacoustics | 2013 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/24490141 |
| Time-reversed adapted-perturbation (TRAP) optical focusing onto dynamic objects inside scattering media. | Ma C, Xu X, Liu Y, Wang LV | Nature photonics | 25530797 | Nat Photonics | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25530797 |
| alphaVbeta3-targeted copper nanoparticles incorporating an Sn 2 lipase-labile fumagillin prodrug for photoacoustic neovascular imaging and treatment. | Zhang R, Pan D, Cai X, Yang X, Senpan A, Allen JS, Lanza GM, Wang LV | Theranostics | 25553103 | Theranostics | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25553103 |
| Multi-view optical resolution photoacoustic microscopy. | Zhu L, Li L, Gao L, Wang LV | Optica | 25558469 | Optica | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25558469 |
| Encrypted Three-dimensional Dynamic Imaging using Snapshot Time-of-flight Compressed Ultrafast Photography. | Liang J, Gao L, Hai P, Li C, Wang LV | Scientific reports | 26503834 | Sci Rep | 2015 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/26503834 |
| Fueling thought: Management of glycolysis and oxidative phosphorylation in neuronal metabolism. | Yellen G | The Journal of cell biology | 29752396 | J Cell Biol | 2018 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/29752396 |
| Quantitative two-photon imaging of fluorescent biosensors. | Yellen G, Mongeon R | Current opinion in chemical biology | 26079046 | Curr Opin Chem Biol | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26079046 |
| Quantitative in vivo imaging of neuronal glucose concentrations with a genetically encoded fluorescence lifetime sensor. | Díaz-García CM, Lahmann C, Martínez-François JR, Li B, Koveal D, Nathwani N, Rahman M, Keller JP, Marvin JS, Looger LL, Yellen G | Journal of neuroscience research | 31106909 | J Neurosci Res | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31106909 |
| Imaging energy status in live cells with a fluorescent biosensor of the intracellular ATP-to-ADP ratio. | Tantama M, Martínez-François JR, Mongeon R, Yellen G | Nature communications | 24096541 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24096541 |
| The leak channel NALCN controls tonic firing and glycolytic sensitivity of substantia nigra pars reticulata neurons. | Lutas A, Lahmann C, Soumillon M, Yellen G | eLife | 27177420 | Elife | 2016 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/27177420 |
| Imaging changes in the cytosolic ATP-to-ADP ratio. | Tantama M, Yellen G | Methods in enzymology | 25416365 | Methods Enzymol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25416365 |
| Live-cell imaging of cytosolic NADH-NAD+ redox state using a genetically encoded fluorescent biosensor. | Hung YP, Yellen G | Methods in molecular biology (Clifton, N.J.) | 24052382 | Methods Mol Biol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24052382 |
| Neuronal Stimulation Triggers Neuronal Glycolysis and Not Lactate Uptake. | Díaz-García CM, Mongeon R, Lahmann C, Koveal D, Zucker H, Yellen G | Cell metabolism | 28768175 | Cell Metab | 2017 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/28768175 |
| BAD knockout provides metabolic seizure resistance in a genetic model of epilepsy with sudden unexplained death in epilepsy. | Foley J, Burnham V, Tedoldi M, Danial NN, Yellen G | Epilepsia | 29171006 | Epilepsia | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29171006 |
| BAD and K(ATP) channels regulate neuron excitability and epileptiform activity. | Martínez-François JR, Fernández-Agüera MC, Nathwani N, Lahmann C, Burnham VL, Danial NN, Yellen G | eLife | 29368690 | Elife | 2018 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/29368690 |
| Akt regulation of glycolysis mediates bioenergetic stability in epithelial cells. | Hung YP, Teragawa C, Kosaisawe N, Gillies TE, Pargett M, Minguet M, Distor K, Rocha-Gregg BL, Coloff JL, Keibler MA, Stephanopoulos G, Yellen G, Brugge JS, Albeck JG | eLife | 29239720 | Elife | 2017 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/29239720 |
| Cytosolic NADH-NAD(+) Redox Visualized in Brain Slices by Two-Photon Fluorescence Lifetime Biosensor Imaging. | Mongeon R, Venkatachalam V, Yellen G | Antioxidants & redox signaling | 26857245 | Antioxid Redox Signal | 2016 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/26857245 |
| Live cell imaging of cytosolic NADH/NAD(+) ratio in hepatocytes and liver slices. | Masia R, McCarty WJ, Lahmann C, Luther J, Chung RT, Yarmush ML, Yellen G | American journal of physiology. Gastrointestinal and liver physiology | 29025729 | Am J Physiol Gastrointest Liver Physiol | 2018 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/29025729 |
| Quantitative determinants of aerobic glycolysis identify flux through the enzyme GAPDH as a limiting step. | Shestov AA, Liu X, Ser Z, Cluntun AA, Hung YP, Huang L, Kim D, Le A, Yellen G, Albeck JG, Locasale JW | eLife | 25009227 | Elife | 2014 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/25009227 |
| A PKA activity sensor for quantitative analysis of endogenous GPCR signaling via 2-photon FRET-FLIM imaging. | Chen Y, Saulnier JL, Yellen G, Sabatini BL | Frontiers in pharmacology | 24765076 | Front Pharmacol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24765076 |
| Hepatic NADH reductive stress underlies common variation in metabolic traits. | Goodman RP, Markhard AL, Shah H, Sharma R, Skinner OS, Clish CB, Deik A, Patgiri A, Hsu YH, Masia R, Noh HL, Suk S, Goldberger O, Hirschhorn JN, Yellen G, Kim JK, Mootha VK | Nature | 32461692 | Nature | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32461692 |
| Biomimicry enhances sequential reactions of tethered glycolytic enzymes, TPI and GAPDHS. | Mukai C, Gao L, Bergkvist M, Nelson JL, Hinchman MM, Travis AJ | PloS one | 23626684 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23626684 |
| The role of MATER in endoplasmic reticulum distribution and calcium homeostasis in mouse oocytes. | Kim B, Zhang X, Kan R, Cohen R, Mukai C, Travis AJ, Coonrod SA | Developmental biology | 24374158 | Dev Biol | 2014 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/24374158 |
| Ferromagnetic nanoparticles with peroxidase-like activity enhance the cleavage of biological macromolecules for biofilm elimination. | Gao L, Giglio KM, Nelson JL, Sondermann H, Travis AJ | Nanoscale | 24468900 | Nanoscale | 2014 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/24468900 |
| Biomimicry Promotes the Efficiency of a 10-Step Sequential Enzymatic Reaction on Nanoparticles, Converting Glucose to Lactate. | Mukai C, Gao L, Nelson JL, Lata JP, Cohen R, Wu L, Hinchman MM, Bergkvist M, Sherwood RW, Zhang S, Travis AJ | Angewandte Chemie (International ed. in English) | 27901298 | Angew Chem Int Ed Engl | 2017 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/27901298 |
| Pretreatment of Asian elephant (Elephas maximus) spermatozoa with cholesterol-loaded cyclodextrins and glycerol addition at 4°C improves cryosurvival. | Kiso WK, Asano A, Travis AJ, Schmitt DL, Brown JL, Pukazhenthi BS | Reproduction, fertility, and development | 22954260 | Reprod Fertil Dev | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22954260 |
| Live Births from Domestic Dog (Canis familiaris) Embryos Produced by In Vitro Fertilization. | Nagashima JB, Sylvester SR, Nelson JL, Cheong SH, Mukai C, Lambo C, Flanders JA, Meyers-Wallen VN, Songsasen N, Travis AJ | PloS one | 26650234 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26650234 |
| Subwavelength lattice optics by evolutionary design. | Huntington MD, Lauhon LJ, Odom TW | Nano letters | 25380062 | Nano Lett | 2014 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/25380062 |
| Tunable loading of oligonucleotides with secondary structure on gold nanoparticles through a pH-driven method. | Dam DH, Lee H, Lee RC, Kim KH, Kelleher NL, Odom TW | Bioconjugate chemistry | 25564799 | Bioconjug Chem | 2015 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/25564799 |
| Enhanced Human Epidermal Growth Factor Receptor 2 Degradation in Breast Cancer Cells by Lysosome-Targeting Gold Nanoconstructs. | Lee H, Dam DH, Ha JW, Yue J, Odom TW | ACS nano | 26335372 | ACS Nano | 2015 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/26335372 |
| Building multidisciplinary research. | Wang MC | Molecular biology of the cell | 29084905 | Mol Biol Cell | 2017 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/29084905 |
| Fingerprint Stimulated Raman Scattering Imaging Reveals Retinoid Coupling Lipid Metabolism and Survival. | Chen AJ, Li J, Jannasch A, Mutlu AS, Wang MC, Cheng JX | Chemphyschem : a European journal of chemical physics and physical chemistry | 29911339 | Chemphyschem | 2018 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/29911339 |
| 'Inside Out'- a dialogue between mitochondria and bacteria. | Han B, Lin CJ, Hu G, Wang MC | The FEBS journal | 30390412 | FEBS J | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30390412 |
| Quantitative Real-Time Imaging of Glutathione with Subcellular Resolution. | Jiang X, Zhang C, Chen J, Choi S, Zhou Y, Zhao M, Song X, Chen X, Maletić-Savatić M, Palzkill T, Moore D, Wang MC, Wang J | Antioxidants & redox signaling | 30358421 | Antioxid Redox Signal | 2019 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/30358421 |
| The Bacterivore's Solution: Fight and Flight to Promote Survival. | Lee YT, Wang MC | Developmental cell | 30965036 | Dev Cell | 2019 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/30965036 |
| Localized glucose import, glycolytic processing, and mitochondria generate a focused ATP burst to power basement-membrane invasion. | Garde A, Kenny IW, Kelley LC, Chi Q, Mutlu AS, Wang MC, Sherwood DR | Developmental cell | 35316617 | Dev Cell | 2022 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/35316617 |
| Microbial Genetic Composition Tunes Host Longevity. | Han B, Sivaramakrishnan P, Lin CJ, Neve IAA, He J, Tay LWR, Sowa JN, Sizovs A, Du G, Wang J, Herman C, Wang MC | Cell | 29727664 | Cell | 2018 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/29727664 |
| Mediterranean mechanisms of longevity. | Mendenhall AR | Nature cell biology | 37127713 | Nat Cell Biol | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/37127713 |
| Aging atlas reveals cell-type-specific effects of pro-longevity strategies. | Gao SM, Qi Y, Zhang Q, Guan Y, Lee YT, Ding L, Wang L, Mohammed AS, Li H, Fu Y, Wang MC | Nature aging | 38816550 | Nat Aging | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/38816550 |
| Mitochondrial GTP metabolism controls reproductive aging in C. elegans. | Lee YT, Savini M, Chen T, Yang J, Zhao Q, Ding L, Gao SM, Senturk M, Sowa JN, Wang JD, Wang MC | Developmental cell | 37708895 | Dev Cell | 2023 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/37708895 |
| Lysosome lipid signalling from the periphery to neurons regulates longevity. | Savini M, Folick A, Lee YT, Jin F, Cuevas A, Tillman MC, Duffy JD, Zhao Q, Neve IA, Hu PW, Yu Y, Zhang Q, Ye Y, Mair WB, Wang J, Han L, Ortlund EA, Wang MC | Nature cell biology | 35681008 | Nat Cell Biol | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35681008 |
| 3D genomics across the tree of life reveals condensin II as a determinant of architecture type. | Hoencamp C, Dudchenko O, Elbatsh AMO, Brahmachari S, Raaijmakers JA, van Schaik T, Sedeño Cacciatore Á, Contessoto VG, van Heesbeen RGHP, van den Broek B, Mhaskar AN, Teunissen H, St Hilaire BG, Weisz D, Omer AD, Pham M, Colaric Z, Yang Z, Rao SSP, Mitra N, Lui C, Yao W, Khan R, Moroz LL, Kohn A, St Leger J, Mena A, Holcroft K, Gambetta MC, Lim F, Farley E, Stein N, Haddad A, Chauss D, Mutlu AS, Wang MC, Young ND, Hildebrandt E, Cheng HH, Knight CJ, Burnham TLU, Hovel KA, Beel AJ, Mattei PJ, Kornberg RD, Warren WC, Cary G, Gómez-Skarmeta JL, Hinman V, Lindblad-Toh K, Di Palma F, Maeshima K, Multani AS, Pathak S, Nel-Themaat L, Behringer RR, Kaur P, Medema RH, van Steensel B, de Wit E, Onuchic JN, Di Pierro M, Lieberman Aiden E, Rowland BD | Science (New York, N.Y.) | 34045355 | Science | 2021 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/34045355 |
| Label-Free Imaging of Lipid Storage Dynamics in Caenorhabditis elegans using Stimulated Raman Scattering Microscopy. | Mutlu AS, Chen T, Deng D, Wang MC | Journal of visualized experiments : JoVE | 34125101 | J Vis Exp | 2021 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/34125101 |
| Microbial Genetic Composition Tunes Host Longevity. | Han B, Sivaramakrishnan P, Lin CJ, Neve IAA, He J, Tay LWR, Sowa JN, Sizovs A, Du G, Wang J, Herman C, Wang MC | Cell | 28622510 | Cell | 2017 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/28622510 |
| Challenges and Opportunities for Small-Molecule Fluorescent Probes in Redox Biology Applications. | Jiang X, Wang L, Carroll SL, Chen J, Wang MC, Wang J | Antioxidants & redox signaling | 29320869 | Antioxid Redox Signal | 2018 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/29320869 |
| Does Autophagy Promote Longevity? It Depends. | Savini M, Wang MC | Cell | 30951663 | Cell | 2019 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/30951663 |
| Lysosomal Signaling Promotes Longevity by Adjusting Mitochondrial Activity. | Ramachandran PV, Savini M, Folick AK, Hu K, Masand R, Graham BH, Wang MC | Developmental cell | 30713071 | Dev Cell | 2019 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/30713071 |
| Molecular Mechanisms of Lysosome and Nucleus Communication. | Zhao Q, Gao SM, Wang MC | Trends in biochemical sciences | 32624271 | Trends Biochem Sci | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/32624271 |
| Host and microbiota metabolic signals in aging and longevity. | Zhou Y, Hu G, Wang MC | Nature chemical biology | 34552221 | Nat Chem Biol | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34552221 |
| TEMI: tissue-expansion mass-spectrometry imaging. | Zhang H, Ding L, Hu A, Shi X, Huang P, Lu H, Tillberg PW, Wang MC, Li L | Nature methods | 40263584 | Nat Methods | 2025 May | https://www.ncbi.nlm.nih.gov/pubmed/40263584 |
| Optogenetic control of gut bacterial metabolism to promote longevity. | Hartsough LA, Park M, Kotlajich MV, Lazar JT, Han B, Lin CJ, Musteata E, Gambill L, Wang MC, Tabor JJ | eLife | 33325823 | Elife | 2020 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/33325823 |
| Microbial metabolites regulate host lipid metabolism through NR5A-Hedgehog signalling. | Lin CJ, Wang MC | Nature cell biology | 28436966 | Nat Cell Biol | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28436966 |
| Reversible Reaction-Based Fluorescent Probe for Real-Time Imaging of Glutathione Dynamics in Mitochondria. | Chen J, Jiang X, Zhang C, MacKenzie KR, Stossi F, Palzkill T, Wang MC, Wang J | ACS sensors | 28809477 | ACS Sens | 2017 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/28809477 |
| Quantitative real-time imaging of glutathione. | Jiang X, Chen J, Bajić A, Zhang C, Song X, Carroll SL, Cai ZL, Tang M, Xue M, Cheng N, Schaaf CP, Li F, MacKenzie KR, Ferreon ACM, Xia F, Wang MC, Maletić-Savatić M, Wang J | Nature communications | 28703127 | Nat Commun | 2017 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/28703127 |
| High-throughput screens using photo-highlighting discover BMP signaling in mitochondrial lipid oxidation. | Yu Y, Mutlu AS, Liu H, Wang MC | Nature communications | 29021566 | Nat Commun | 2017 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/29021566 |
| Lysosomes: Signaling Hubs for Metabolic Sensing and Longevity. | Savini M, Zhao Q, Wang MC | Trends in cell biology | 31611045 | Trends Cell Biol | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31611045 |
| Methyl-Sensing Nuclear Receptor Liver Receptor Homolog-1 Regulates Mitochondrial Function in Mouse Hepatocytes. | Choi S, Dong B, Lin CJ, Heo MJ, Kim KH, Sun Z, Wagner M, Putluri N, Suh JM, Wang MC, Moore DD | Hepatology (Baltimore, Md.) | 31355949 | Hepatology | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31355949 |
| Targeting calcium-mediated inter-organellar crosstalk in cardiac diseases. | Hulsurkar MM, Lahiri SK, Karch J, Wang MC, Wehrens XHT | Expert opinion on therapeutic targets | 35426759 | Expert Opin Ther Targets | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/35426759 |
| Lipid metabolism and lipid signals in aging and longevity. | Mutlu AS, Duffy J, Wang MC | Developmental cell | 33891896 | Dev Cell | 2021 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/33891896 |
| Lipid droplets and peroxisomes are co-regulated to drive lifespan extension in response to mono-unsaturated fatty acids. | Papsdorf K, Miklas JW, Hosseini A, Cabruja M, Morrow CS, Savini M, Yu Y, Silva-García CG, Haseley NR, Murphy LM, Yao P, de Launoit E, Dixon SJ, Snyder MP, Wang MC, Mair WB, Brunet A | Nature cell biology | 37127715 | Nat Cell Biol | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/37127715 |
| Structural characterization of life-extending Caenorhabditis elegans Lipid Binding Protein 8. | Tillman MC, Khadka M, Duffy J, Wang MC, Ortlund EA | Scientific reports | 31292465 | Sci Rep | 2019 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/31292465 |
| Olfactory specificity regulates lipid metabolism through neuroendocrine signaling in Caenorhabditis elegans. | Mutlu AS, Gao SM, Zhang H, Wang MC | Nature communications | 32193370 | Nat Commun | 2020 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/32193370 |
| Dissecting lipid droplet biology with coherent Raman scattering microscopy. | Chen T, Yavuz A, Wang MC | Journal of cell science | 33975358 | J Cell Sci | 2022 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/33975358 |
| Aging: Antagonistic Pleiotropy Supported by Gut Eating. | Park M, Wang MC | Current biology : CB | 30130513 | Curr Biol | 2018 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/30130513 |
| Neuronal regulation of longevity by staying cool. | Lin CJ, Neve IAA, Wang MC | Genes & development | 29491133 | Genes Dev | 2018 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/29491133 |
| Escherichia coli Metabolite Profiling Leads to the Development of an RNA Interference Strain for Caenorhabditis elegans. | Neve IAA, Sowa JN, Lin CJ, Sivaramakrishnan P, Herman C, Ye Y, Han L, Wang MC | G3 (Bethesda, Md.) | 31712257 | G3 (Bethesda) | 2020 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/31712257 |
| Four Key Steps Control Glycolytic Flux in Mammalian Cells. | Tanner LB, Goglia AG, Wei MH, Sehgal T, Parsons LR, Park JO, White E, Toettcher JE, Rabinowitz JD | Cell systems | 29960885 | Cell Syst | 2018 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/29960885 |
| Metabolite Measurement: Pitfalls to Avoid and Practices to Follow. | Lu W, Su X, Klein MS, Lewis IA, Fiehn O, Rabinowitz JD | Annual review of biochemistry | 28654323 | Annu Rev Biochem | 2017 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/28654323 |
| Chemical Basis for Deuterium Labeling of Fat and NADPH. | Zhang Z, Chen L, Liu L, Su X, Rabinowitz JD | Journal of the American Chemical Society | 28911221 | J Am Chem Soc | 2017 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/28911221 |
| Improved Annotation of Untargeted Metabolomics Data through Buffer Modifications That Shift Adduct Mass and Intensity. | Lu W, Xing X, Wang L, Chen L, Zhang S, McReynolds MR, Rabinowitz JD | Analytical chemistry | 32614575 | Anal Chem | 2020 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/32614575 |
| mTORC1 promotes cell growth via m(6)A-dependent mRNA degradation. | Cho S, Lee G, Pickering BF, Jang C, Park JH, He L, Mathur L, Kim SS, Jung S, Tang HW, Monette S, Rabinowitz JD, Perrimon N, Jaffrey SR, Blenis J | Molecular cell | 33756105 | Mol Cell | 2021 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/33756105 |
| The adverse metabolic effects of branched-chain amino acids are mediated by isoleucine and valine. | Yu D, Richardson NE, Green CL, Spicer AB, Murphy ME, Flores V, Jang C, Kasza I, Nikodemova M, Wakai MH, Tomasiewicz JL, Yang SE, Miller BR, Pak HH, Brinkman JA, Rojas JM, Quinn WJ 3rd, Cheng EP, Konon EN, Haider LR, Finke M, Sonsalla M, Alexander CM, Rabinowitz JD, Baur JA, Malecki KC, Lamming DW | Cell metabolism | 33887198 | Cell Metab | 2021 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/33887198 |
| Quantitative flux analysis in mammals. | Bartman CR, TeSlaa T, Rabinowitz JD | Nature metabolism | 34211182 | Nat Metab | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34211182 |
| Spatially resolved isotope tracing reveals tissue metabolic activity. | Wang L, Xing X, Zeng X, Jackson SR, TeSlaa T, Al-Dalahmah O, Samarah LZ, Goodwin K, Yang L, McReynolds MR, Li X, Wolff JJ, Rabinowitz JD, Davidson SM | Nature methods | 35132243 | Nat Methods | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35132243 |
| Quantitative Analysis of the Whole-Body Metabolic Fate of Branched-Chain Amino Acids. | Neinast MD, Jang C, Hui S, Murashige DS, Chu Q, Morscher RJ, Li X, Zhan L, White E, Anthony TG, Rabinowitz JD, Arany Z | Cell metabolism | 30449684 | Cell Metab | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30449684 |
| Peak Annotation and Verification Engine for Untargeted LC-MS Metabolomics. | Wang L, Xing X, Chen L, Yang L, Su X, Rabitz H, Lu W, Rabinowitz JD | Analytical chemistry | 30586294 | Anal Chem | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30586294 |
| Serine Catabolism Feeds NADH when Respiration Is Impaired. | Yang L, Garcia Canaveras JC, Chen Z, Wang L, Liang L, Jang C, Mayr JA, Zhang Z, Ghergurovich JM, Zhan L, Joshi S, Hu Z, McReynolds MR, Su X, White E, Morscher RJ, Rabinowitz JD | Cell metabolism | 32187526 | Cell Metab | 2020 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/32187526 |
| Quantitative Analysis of NAD Synthesis-Breakdown Fluxes. | Liu L, Su X, Quinn WJ 3rd, Hui S, Krukenberg K, Frederick DW, Redpath P, Zhan L, Chellappa K, White E, Migaud M, Mitchison TJ, Baur JA, Rabinowitz JD | Cell metabolism | 29685734 | Cell Metab | 2018 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/29685734 |
| Metabolomics and Isotope Tracing. | Jang C, Chen L, Rabinowitz JD | Cell | 29727671 | Cell | 2018 May 3 | https://www.ncbi.nlm.nih.gov/pubmed/29727671 |
| NADPH production by the oxidative pentose-phosphate pathway supports folate metabolism. | Chen L, Zhang Z, Hoshino A, Zheng HD, Morley M, Arany Z, Rabinowitz JD | Nature metabolism | 31058257 | Nat Metab | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31058257 |
| Reprogramming neuroblastoma by diet-enhanced polyamine depletion. | Cherkaoui S, Yang L, McBride M, Turn CS, Lu W, Eigenmann C, Allen GE, Panasenko OO, Zhang L, Vu A, Liu K, Li Y, Gandhi OH, Surrey L, Wierer M, White E, Rabinowitz JD, Hogarty MD, Morscher RJ | bioRxiv : the preprint server for biology | 38260457 | bioRxiv | 2024 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/38260457 |
| Lactate homeostasis is maintained through regulation of glycolysis and lipolysis. | Lee WD, Weilandt DR, Liang L, MacArthur MR, Jaiswal N, Ong O, Mann CG, Chu Q, Hunter CJ, Ryseck RP, Lu W, Oschmann AM, Cowan AJ, TeSlaa TA, Bartman CR, Jang C, Baur JA, Titchenell PM, Rabinowitz JD | Cell metabolism | 39889702 | Cell Metab | 2025 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/39889702 |
| Glycine homeostasis requires reverse SHMT flux. | McBride MJ, Hunter CJ, Zhang Z, TeSlaa T, Xu X, Ducker GS, Rabinowitz JD | Cell metabolism | 38171330 | Cell Metab | 2024 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/38171330 |
| Dietary fructose feeds hepatic lipogenesis via microbiota-derived acetate. | Zhao S, Jang C, Liu J, Uehara K, Gilbert M, Izzo L, Zeng X, Trefely S, Fernandez S, Carrer A, Miller KD, Schug ZT, Snyder NW, Gade TP, Titchenell PM, Rabinowitz JD, Wellen KE | Nature | 32214246 | Nature | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32214246 |
| The metabolites NADP(+) and NADPH are the targets of the circadian protein Nocturnin (Curled). | Estrella MA, Du J, Chen L, Rath S, Prangley E, Chitrakar A, Aoki T, Schedl P, Rabinowitz J, Korennykh A | Nature communications | 31147539 | Nat Commun | 2019 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/31147539 |
| NAD precursors cycle between host tissues and the gut microbiome. | Chellappa K, McReynolds MR, Lu W, Zeng X, Makarov M, Hayat F, Mukherjee S, Bhat YR, Lingala SR, Shima RT, Descamps HC, Cox T, Ji L, Jankowski C, Chu Q, Davidson SM, Thaiss CA, Migaud ME, Rabinowitz JD, Baur JA | Cell metabolism | 36476934 | Cell Metab | 2022 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/36476934 |
| Myeloid-derived itaconate suppresses cytotoxic CD8(+) T cells and promotes tumour growth. | Zhao H, Teng D, Yang L, Xu X, Chen J, Jiang T, Feng AY, Zhang Y, Frederick DT, Gu L, Cai L, Asara JM, Pasca di Magliano M, Boland GM, Flaherty KT, Swanson KD, Liu D, Rabinowitz JD, Zheng B | Nature metabolism | 36376563 | Nat Metab | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36376563 |
| NAD(+) flux is maintained in aged mice despite lower tissue concentrations. | McReynolds MR, Chellappa K, Chiles E, Jankowski C, Shen Y, Chen L, Descamps HC, Mukherjee S, Bhat YR, Lingala SR, Chu Q, Botolin P, Hayat F, Doke T, Susztak K, Thaiss CA, Lu W, Migaud ME, Su X, Rabinowitz JD, Baur JA | Cell systems | 34559996 | Cell Syst | 2021 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/34559996 |
| Comprehensive quantification of fuel use by the failing and nonfailing human heart. | Murashige D, Jang C, Neinast M, Edwards JJ, Cowan A, Hyman MC, Rabinowitz JD, Frankel DS, Arany Z | Science (New York, N.Y.) | 33060364 | Science | 2020 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/33060364 |
| Mitochondrial translation requires folate-dependent tRNA methylation. | Morscher RJ, Ducker GS, Li SH, Mayer JA, Gitai Z, Sperl W, Rabinowitz JD | Nature | 29364879 | Nature | 2018 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/29364879 |
| SHMT inhibition is effective and synergizes with methotrexate in T-cell acute lymphoblastic leukemia. | García-Cañaveras JC, Lancho O, Ducker GS, Ghergurovich JM, Xu X, da Silva-Diz V, Minuzzo S, Indraccolo S, Kim H, Herranz D, Rabinowitz JD | Leukemia | 32382081 | Leukemia | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32382081 |
| Extraction and Quantitation of Nicotinamide Adenine Dinucleotide Redox Cofactors. | Lu W, Wang L, Chen L, Hui S, Rabinowitz JD | Antioxidants & redox signaling | 28497978 | Antioxid Redox Signal | 2018 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/28497978 |
| Lactate: the ugly duckling of energy metabolism. | Rabinowitz JD, Enerbäck S | Nature metabolism | 32694798 | Nat Metab | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32694798 |
| Novel Pyrrolo[3,2-d]pyrimidine Compounds Target Mitochondrial and Cytosolic One-carbon Metabolism with Broad-spectrum Antitumor Efficacy. | Dekhne AS, Shah K, Ducker GS, Katinas JM, Wong-Roushar J, Nayeen MJ, Doshi A, Ning C, Bao X, Frühauf J, Liu J, Wallace-Povirk A, O'Connor C, Dzinic SH, White K, Kushner J, Kim S, Hüttemann M, Polin L, Rabinowitz JD, Li J, Hou Z, Dann CE 3rd, Gangjee A, Matherly LH | Molecular cancer therapeutics | 31289137 | Mol Cancer Ther | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31289137 |
| Lactate dehydrogenase inhibition synergizes with IL-21 to promote CD8(+) T cell stemness and antitumor immunity. | Hermans D, Gautam S, García-Cañaveras JC, Gromer D, Mitra S, Spolski R, Li P, Christensen S, Nguyen R, Lin JX, Oh J, Du N, Veenbergen S, Fioravanti J, Ebina-Shibuya R, Bleck C, Neckers LM, Rabinowitz JD, Gattinoni L, Leonard WJ | Proceedings of the National Academy of Sciences of the United States of America | 32123114 | Proc Natl Acad Sci U S A | 2020 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/32123114 |
| The small intestine shields the liver from fructose-induced steatosis. | Jang C, Wada S, Yang S, Gosis B, Zeng X, Zhang Z, Shen Y, Lee G, Arany Z, Rabinowitz JD | Nature metabolism | 32694791 | Nat Metab | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32694791 |
| A small molecule G6PD inhibitor reveals immune dependence on pentose phosphate pathway. | Ghergurovich JM, García-Cañaveras JC, Wang J, Schmidt E, Zhang Z, TeSlaa T, Patel H, Chen L, Britt EC, Piqueras-Nebot M, Gomez-Cabrera MC, Lahoz A, Fan J, Beier UH, Kim H, Rabinowitz JD | Nature chemical biology | 32393898 | Nat Chem Biol | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32393898 |
| Perinatal high fat diet and early life methyl donor supplementation alter one carbon metabolism and DNA methylation in the brain. | McKee SE, Zhang S, Chen L, Rabinowitz JD, Reyes TM | Journal of neurochemistry | 29423909 | J Neurochem | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29423909 |
| 5,10-methenyltetrahydrofolate synthetase deficiency causes a neurometabolic disorder associated with microcephaly, epilepsy, and cerebral hypomyelination. | Rodan LH, Qi W, Ducker GS, Demirbas D, Laine R, Yang E, Walker MA, Eichler F, Rabinowitz JD, Anselm I, Berry GT, Undiagnosed Diseases Network (UDN) | Molecular genetics and metabolism | 30031689 | Mol Genet Metab | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30031689 |
| Ketogenic diet and chemotherapy combine to disrupt pancreatic cancer metabolism and growth. | Yang L, TeSlaa T, Ng S, Nofal M, Wang L, Lan T, Zeng X, Cowan A, McBride M, Lu W, Davidson S, Liang G, Oh TG, Downes M, Evans R, Von Hoff D, Guo JY, Han H, Rabinowitz JD | Med (New York, N.Y.) | 35425930 | Med | 2022 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/35425930 |
| Serine catabolism generates liver NADPH and supports hepatic lipogenesis. | Zhang Z, TeSlaa T, Xu X, Zeng X, Yang L, Xing G, Tesz GJ, Clasquin MF, Rabinowitz JD | Nature metabolism | 34845393 | Nat Metab | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34845393 |
| Circulating metabolite homeostasis achieved through mass action. | Li X, Hui S, Mirek ET, Jonsson WO, Anthony TG, Lee WD, Zeng X, Jang C, Rabinowitz JD | Nature metabolism | 35058631 | Nat Metab | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/35058631 |
| Sex and genetic background define the metabolic, physiologic, and molecular response to protein restriction. | Green CL, Pak HH, Richardson NE, Flores V, Yu D, Tomasiewicz JL, Dumas SN, Kredell K, Fan JW, Kirsh C, Chaiyakul K, Murphy ME, Babygirija R, Barrett-Wilt GA, Rabinowitz J, Ong IM, Jang C, Simcox J, Lamming DW | Cell metabolism | 35108511 | Cell Metab | 2022 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/35108511 |
| Local production of lactate, ribose phosphate, and amino acids within human triple-negative breast cancer. | Ghergurovich JM, Lang JD, Levin MK, Briones N, Facista SJ, Mueller C, Cowan AJ, McBride MJ, Rodriguez ESR, Killian A, Dao T, Lamont J, Barron A, Su X, Hendricks WPD, Espina V, Von Hoff DD, O'Shaughnessy J, Rabinowitz JD | Med (New York, N.Y.) | 34223403 | Med | 2021 Jun 11 | https://www.ncbi.nlm.nih.gov/pubmed/34223403 |
| GCN2 adapts protein synthesis to scavenging-dependent growth. | Nofal M, Wang T, Yang L, Jankowski CSR, Hsin-Jung Li S, Han S, Parsons L, Frese AN, Gitai Z, Anthony TG, Wühr M, Sabatini DM, Rabinowitz JD | Cell systems | 34706266 | Cell Syst | 2022 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/34706266 |
| mTOR Inhibition Restores Amino Acid Balance in Cells Dependent on Catabolism of Extracellular Protein. | Nofal M, Zhang K, Han S, Rabinowitz JD | Molecular cell | 28918901 | Mol Cell | 2017 Sep 21 | https://www.ncbi.nlm.nih.gov/pubmed/28918901 |
| Glucose feeds the TCA cycle via circulating lactate. | Hui S, Ghergurovich JM, Morscher RJ, Jang C, Teng X, Lu W, Esparza LA, Reya T, Le Zhan, Yanxiang Guo J, White E, Rabinowitz JD | Nature | 29045397 | Nature | 2017 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/29045397 |
| The Small Intestine Converts Dietary Fructose into Glucose and Organic Acids. | Jang C, Hui S, Lu W, Cowan AJ, Morscher RJ, Lee G, Liu W, Tesz GJ, Birnbaum MJ, Rabinowitz JD | Cell metabolism | 29414685 | Cell Metab | 2018 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/29414685 |
| Metabolite Exchange between Mammalian Organs Quantified in Pigs. | Jang C, Hui S, Zeng X, Cowan AJ, Wang L, Chen L, Morscher RJ, Reyes J, Frezza C, Hwang HY, Imai A, Saito Y, Okamoto K, Vaspoli C, Kasprenski L, Zsido GA 2nd, Gorman JH 3rd, Gorman RC, Rabinowitz JD | Cell metabolism | 31257152 | Cell Metab | 2019 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/31257152 |
| Glucose-6-Phosphate Dehydrogenase Is Not Essential for K-Ras-Driven Tumor Growth or Metastasis. | Ghergurovich JM, Esposito M, Chen Z, Wang JZ, Bhatt V, Lan T, White E, Kang Y, Guo JY, Rabinowitz JD | Cancer research | 32661137 | Cancer Res | 2020 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/32661137 |
| Serine Metabolism Supports Macrophage IL-1β Production. | Rodriguez AE, Ducker GS, Billingham LK, Martinez CA, Mainolfi N, Suri V, Friedman A, Manfredi MG, Weinberg SE, Rabinowitz JD, Chandel NS | Cell metabolism | 30773464 | Cell Metab | 2019 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/30773464 |
| Quantitative Fluxomics of Circulating Metabolites. | Hui S, Cowan AJ, Zeng X, Yang L, TeSlaa T, Li X, Bartman C, Zhang Z, Jang C, Wang L, Lu W, Rojas J, Baur J, Rabinowitz JD | Cell metabolism | 32791100 | Cell Metab | 2020 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/32791100 |
| Gut bacterial nutrient preferences quantified in vivo. | Zeng X, Xing X, Gupta M, Keber FC, Lopez JG, Lee YJ, Roichman A, Wang L, Neinast MD, Donia MS, Wühr M, Jang C, Rabinowitz JD | Cell | 36055202 | Cell | 2022 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/36055202 |
| Metabolite Exchange between Mammalian Organs Quantified in Pigs. | Jang C, Hui S, Zeng X, Cowan AJ, Wang L, Chen L, Morscher RJ, Reyes J, Frezza C, Hwang HY, Imai A, Saito Y, Okamoto K, Vaspoli C, Kasprenski L, Zsido GA 2nd, Gorman JH 3rd, Gorman RC, Rabinowitz JD | Cell metabolism | 36070684 | Cell Metab | 2022 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/36070684 |
| Methionine synthase supports tumour tetrahydrofolate pools. | Ghergurovich JM, Xu X, Wang JZ, Yang L, Ryseck RP, Wang L, Rabinowitz JD | Nature metabolism | 34799699 | Nat Metab | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34799699 |
| Monitoring mammalian mitochondrial translation with MitoRiboSeq. | Li SH, Nofal M, Parsons LR, Rabinowitz JD, Gitai Z | Nature protocols | 33953394 | Nat Protoc | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33953394 |
| Macrophage de novo NAD(+) synthesis specifies immune function in aging and inflammation. | Minhas PS, Liu L, Moon PK, Joshi AU, Dove C, Mhatre S, Contrepois K, Wang Q, Lee BA, Coronado M, Bernstein D, Snyder MP, Migaud M, Majeti R, Mochly-Rosen D, Rabinowitz JD, Andreasson KI | Nature immunology | 30478397 | Nat Immunol | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30478397 |
| The Source of Glycolytic Intermediates in Mammalian Tissues. | TeSlaa T, Bartman CR, Jankowski CSR, Zhang Z, Xu X, Xing X, Wang L, Lu W, Hui S, Rabinowitz JD | Cell metabolism | 33472024 | Cell Metab | 2021 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/33472024 |
| Restoring metabolism of myeloid cells reverses cognitive decline in ageing. | Minhas PS, Latif-Hernandez A, McReynolds MR, Durairaj AS, Wang Q, Rubin A, Joshi AU, He JQ, Gauba E, Liu L, Wang C, Linde M, Sugiura Y, Moon PK, Majeti R, Suematsu M, Mochly-Rosen D, Weissman IL, Longo FM, Rabinowitz JD, Andreasson KI | Nature | 33473210 | Nature | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33473210 |
| Impact of acute stress on murine metabolomics and metabolic flux. | Lee WD, Liang L, AbuSalim J, Jankowski CSR, Samarah LZ, Neinast MD, Rabinowitz JD | Proceedings of the National Academy of Sciences of the United States of America | 37186827 | Proc Natl Acad Sci U S A | 2023 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/37186827 |
| One-carbon unit supplementation fuels tumor-infiltrating T cells and augments checkpoint blockade. | Xu X, Chen Z, Bartman CR, Xing X, Olszewski K, Rabinowitz JD | bioRxiv : the preprint server for biology | 37961420 | bioRxiv | 2023 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/37961420 |
| The pentose phosphate pathway in health and disease. | TeSlaa T, Ralser M, Fan J, Rabinowitz JD | Nature metabolism | 37612403 | Nat Metab | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37612403 |
| Slow TCA flux and ATP production in primary solid tumours but not metastases. | Bartman CR, Weilandt DR, Shen Y, Lee WD, Han Y, TeSlaa T, Jankowski CSR, Samarah L, Park NR, da Silva-Diz V, Aleksandrova M, Gultekin Y, Marishta A, Wang L, Yang L, Roichman A, Bhatt V, Lan T, Hu Z, Xing X, Lu W, Davidson S, Wühr M, Vander Heiden MG, Herranz D, Guo JY, Kang Y, Rabinowitz JD | Nature | 36725930 | Nature | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36725930 |
| One-carbon unit supplementation fuels purine synthesis in tumor-infiltrating T cells and augments checkpoint blockade. | Xu X, Chen Z, Bartman CR, Xing X, Olszewski K, Rabinowitz JD | Cell chemical biology | 38759619 | Cell Chem Biol | 2024 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/38759619 |
| CRISPR-Cas9 mediated one-step disabling of pancreatogenesis in pigs. | Wu J, Vilarino M, Suzuki K, Okamura D, Bogliotti YS, Park I, Rowe J, McNabb B, Ross PJ, Belmonte JCI | Scientific reports | 28874671 | Sci Rep | 2017 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/28874671 |
| Precise in vivo genome editing via single homology arm donor mediated intron-targeting gene integration for genetic disease correction. | Suzuki K, Yamamoto M, Hernandez-Benitez R, Li Z, Wei C, Soligalla RD, Aizawa E, Hatanaka F, Kurita M, Reddy P, Ocampo A, Hishida T, Sakurai M, Nemeth AN, Nuñez Delicado E, Campistol JM, Magistretti P, Guillen P, Rodriguez Esteban C, Gong J, Yuan Y, Gu Y, Liu GH, López-Otín C, Wu J, Zhang K, Izpisua Belmonte JC | Cell research | 31444470 | Cell Res | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31444470 |
| Generation of Blastocyst-like Structures from Mouse Embryonic and Adult Cell Cultures. | Li R, Zhong C, Yu Y, Liu H, Sakurai M, Yu L, Min Z, Shi L, Wei Y, Takahashi Y, Liao HK, Qiao J, Deng H, Nuñez-Delicado E, Rodriguez Esteban C, Wu J, Izpisua Belmonte JC | Cell | 31626770 | Cell | 2019 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/31626770 |
| Functional sensory circuits built from neurons of two species. | Throesch BT, Bin Imtiaz MK, Muñoz-Castañeda R, Sakurai M, Hartzell AL, James KN, Rodriguez AR, Martin G, Lippi G, Kupriyanov S, Wu Z, Osten P, Izpisua Belmonte JC, Wu J, Baldwin KK | Cell | 38670072 | Cell | 2024 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/38670072 |
| Deconstructing the pluripotency gene regulatory network. | Li M, Izpisua Belmonte JC | Nature cell biology | 29593328 | Nat Cell Biol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29593328 |
| Efficient derivation of stable primed pluripotent embryonic stem cells from bovine blastocysts. | Bogliotti YS, Wu J, Vilarino M, Okamura D, Soto DA, Zhong C, Sakurai M, Sampaio RV, Suzuki K, Izpisua Belmonte JC, Ross PJ | Proceedings of the National Academy of Sciences of the United States of America | 29440377 | Proc Natl Acad Sci U S A | 2018 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/29440377 |
| Skin microbiota-host interactions. | Chen YE, Fischbach MA, Belkaid Y | Nature | 29364286 | Nature | 2018 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/29364286 |
| A metabolic pathway for bile acid dehydroxylation by the gut microbiome. | Funabashi M, Grove TL, Wang M, Varma Y, McFadden ME, Brown LC, Guo C, Higginbottom S, Almo SC, Fischbach MA | Nature | 32555455 | Nature | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32555455 |
| The gutSMASH web server: automated identification of primary metabolic gene clusters from the gut microbiota. | Pascal Andreu V, Roel-Touris J, Dodd D, Fischbach MA, Medema MH | Nucleic acids research | 34019648 | Nucleic Acids Res | 2021 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/34019648 |
| Microbial Transplantation With Human Gut Commensals Containing CutC Is Sufficient to Transmit Enhanced Platelet Reactivity and Thrombosis Potential. | Skye SM, Zhu W, Romano KA, Guo CJ, Wang Z, Jia X, Kirsop J, Haag B, Lang JM, DiDonato JA, Tang WHW, Lusis AJ, Rey FE, Fischbach MA, Hazen SL | Circulation research | 30359185 | Circ Res | 2018 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/30359185 |
| Depletion of microbiome-derived molecules in the host using Clostridium genetics. | Guo CJ, Allen BM, Hiam KJ, Dodd D, Van Treuren W, Higginbottom S, Nagashima K, Fischer CR, Sonnenburg JL, Spitzer MH, Fischbach MA | Science (New York, N.Y.) | 31831639 | Science | 2019 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/31831639 |
| A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles. | Claesen J, Spagnolo JB, Ramos SF, Kurita KL, Byrd AL, Aksenov AA, Melnik AV, Wong WR, Wang S, Hernandez RD, Donia MS, Dorrestein PC, Kong HH, Segre JA, Linington RG, Fischbach MA, Lemon KP | Science translational medicine | 33208503 | Sci Transl Med | 2020 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/33208503 |
| Endogenous retroviruses promote homeostatic and inflammatory responses to the microbiota. | Lima-Junior DS, Krishnamurthy SR, Bouladoux N, Collins N, Han SJ, Chen EY, Constantinides MG, Link VM, Lim AI, Enamorado M, Cataisson C, Gil L, Rao I, Farley TK, Koroleva G, Attig J, Yuspa SH, Fischbach MA, Kassiotis G, Belkaid Y | Cell | 34166614 | Cell | 2021 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/34166614 |
| A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites. | Dodd D, Spitzer MH, Van Treuren W, Merrill BD, Hryckowian AJ, Higginbottom SK, Le A, Cowan TM, Nolan GP, Fischbach MA, Sonnenburg JL | Nature | 29168502 | Nature | 2017 Nov 30 | https://www.ncbi.nlm.nih.gov/pubmed/29168502 |
| Comprehensive Clinical and Genetic Analyses of Circulating Bile Acids and Their Associations With Diabetes and Its Indices. | Choucair I, Mallela DP, Hilser JR, Hartiala JA, Nemet I, Gogonea V, Li L, Lusis AJ, Fischbach MA, Tang WHW, Allayee H, Hazen SL | Diabetes.. | 38701355 | Diabetes | 2024 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/38701355 |
| Mapping the Genetic Landscape of Human Cells. | Horlbeck MA, Xu A, Wang M, Bennett NK, Park CY, Bogdanoff D, Adamson B, Chow ED, Kampmann M, Peterson TR, Nakamura K, Fischbach MA, Weissman JS, Gilbert LA | Cell | 30033366 | Cell | 2018 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/30033366 |
| Microbiome: Focus on Causation and Mechanism. | Fischbach MA | Cell | 30096310 | Cell | 2018 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/30096310 |
| Strain dropouts reveal interactions that govern the metabolic output of the gut microbiome. | Wang M, Osborn LJ, Jain S, Meng X, Weakley A, Yan J, Massey WJ, Varadharajan V, Horak A, Banerjee R, Allende DS, Chan ER, Hajjar AM, Wang Z, Dimas A, Zhao A, Nagashima K, Cheng AG, Higginbottom S, Hazen SL, Brown JM, Fischbach MA | Cell | 37352836 | Cell | 2023 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/37352836 |
| CRISPR-based functional genomics in human dendritic cells. | Jost M, Jacobson AN, Hussmann JA, Cirolia G, Fischbach MA, Weissman JS | eLife | 33904395 | Elife | 2021 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/33904395 |
| gutSMASH predicts specialized primary metabolic pathways from the human gut microbiota. | Pascal Andreu V, Augustijn HE, Chen L, Zhernakova A, Fu J, Fischbach MA, Dodd D, Medema MH | Nature biotechnology | 36782070 | Nat Biotechnol | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36782070 |
| Contextual control of skin immunity and inflammation by Corynebacterium. | Ridaura VK, Bouladoux N, Claesen J, Chen YE, Byrd AL, Constantinides MG, Merrill ED, Tamoutounour S, Fischbach MA, Belkaid Y | The Journal of experimental medicine | 29382696 | J Exp Med | 2018 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/29382696 |
| The Biosynthesis of Lipooligosaccharide from Bacteroides thetaiotaomicron. | Jacobson AN, Choudhury BP, Fischbach MA | mBio | 29535205 | mBio | 2018 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/29535205 |
| MAIT cells are imprinted by the microbiota in early life and promote tissue repair. | Constantinides MG, Link VM, Tamoutounour S, Wong AC, Perez-Chaparro PJ, Han SJ, Chen YE, Li K, Farhat S, Weckel A, Krishnamurthy SR, Vujkovic-Cvijin I, Linehan JL, Bouladoux N, Merrill ED, Roy S, Cua DJ, Adams EJ, Bhandoola A, Scharschmidt TC, Aubé J, Fischbach MA, Belkaid Y | Science (New York, N.Y.) | 31649166 | Science | 2019 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/31649166 |
| Design, construction, and in vivo augmentation of a complex gut microbiome. | Cheng AG, Ho PY, Aranda-Díaz A, Jain S, Yu FB, Meng X, Wang M, Iakiviak M, Nagashima K, Zhao A, Murugkar P, Patil A, Atabakhsh K, Weakley A, Yan J, Brumbaugh AR, Higginbottom S, Dimas A, Shiver AL, Deutschbauer A, Neff N, Sonnenburg JL, Huang KC, Fischbach MA | Cell | 36070752 | Cell | 2022 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/36070752 |
| A metabolomics pipeline for the mechanistic interrogation of the gut microbiome. | Han S, Van Treuren W, Fischer CR, Merrill BD, DeFelice BC, Sanchez JM, Higginbottom SK, Guthrie L, Fall LA, Dodd D, Fischbach MA, Sonnenburg JL | Nature | 34262212 | Nature | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34262212 |
| Bile acids profile, histopathological indices and genetic variants for non-alcoholic fatty liver disease progression. | Nimer N, Choucair I, Wang Z, Nemet I, Li L, Gukasyan J, Weeks TL, Alkhouri N, Zein N, Tang WHW, Fischbach MA, Brown JM, Allayee H, Dasarathy S, Gogonea V, Hazen SL | Metabolism: clinical and experimental | 33275980 | Metabolism | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33275980 |
| Transcriptome Analysis Reveals Nonfoamy Rather Than Foamy Plaque Macrophages Are Proinflammatory in Atherosclerotic Murine Models. | Kim K, Shim D, Lee JS, Zaitsev K, Williams JW, Kim KW, Jang MY, Seok Jang H, Yun TJ, Lee SH, Yoon WK, Prat A, Seidah NG, Choi J, Lee SP, Yoon SH, Nam JW, Seong JK, Oh GT, Randolph GJ, Artyomov MN, Cheong C, Choi JH | Circulation research | 30359200 | Circ Res | 2018 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/30359200 |
| Ileitis-associated tertiary lymphoid organs arise at lymphatic valves and impede mesenteric lymph flow in response to tumor necrosis factor. | Czepielewski RS, Erlich EC, Onufer EJ, Young S, Saunders BT, Han YH, Wohltmann M, Wang PL, Kim KW, Kumar S, Hsieh CS, Scallan JP, Yang Y, Zinselmeyer BH, Davis MJ, Randolph GJ | Immunity | 34788601 | Immunity | 2021 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/34788601 |
| CCR7 and IRF4-dependent dendritic cells regulate lymphatic collecting vessel permeability. | Ivanov S, Scallan JP, Kim KW, Werth K, Johnson MW, Saunders BT, Wang PL, Kuan EL, Straub AC, Ouhachi M, Weinstein EG, Williams JW, Briseño C, Colonna M, Isakson BE, Gautier EL, Förster R, Davis MJ, Zinselmeyer BH, Randolph GJ | The Journal of clinical investigation | 26999610 | J Clin Invest | 2016 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/26999610 |
| Microbiota-Dependent Sequelae of Acute Infection Compromise Tissue-Specific Immunity. | Fonseca DM, Hand TW, Han SJ, Gerner MY, Glatman Zaretsky A, Byrd AL, Harrison OJ, Ortiz AM, Quinones M, Trinchieri G, Brenchley JM, Brodsky IE, Germain RN, Randolph GJ, Belkaid Y | Cell | 26451485 | Cell | 2015 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/26451485 |
| Lymphatic network remodeling after small bowel resection. | Onufer EJ, Czepielewski R, Seiler KM, Erlich E, Courtney CM, Bustos A, Randolph GJ, Warner BW | Journal of pediatric surgery | 30879758 | J Pediatr Surg | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30879758 |
| CD36 deficiency impairs the small intestinal barrier and induces subclinical inflammation in mice. | Cifarelli V, Ivanov S, Xie Y, Son NH, Saunders BT, Pietka TA, Shew TM, Yoshino J, Sundaresan S, Davidson NO, Goldberg IJ, Gelman AE, Zinselmeyer BH, Randolph GJ, Abumrad NA | Cellular and molecular gastroenterology and hepatology | 28066800 | Cell Mol Gastroenterol Hepatol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28066800 |
| A Stromal Niche Defined by Expression of the Transcription Factor WT1 Mediates Programming and Homeostasis of Cavity-Resident Macrophages. | Buechler MB, Kim KW, Onufer EJ, Williams JW, Little CC, Dominguez CX, Li Q, Sandoval W, Cooper JE, Harris CA, Junttila MR, Randolph GJ, Turley SJ | Immunity | 31231034 | Immunity | 2019 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/31231034 |
| B Cell-Mediated Antigen Presentation through MHC Class II Is Dispensable for Atherosclerosis Progression. | Williams JW, Elvington A, Kessler S, Wohltmann M, Wu GF, Randolph GJ | ImmunoHorizons | 31356175 | Immunohorizons | 2019 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/31356175 |
| Mafb lineage tracing to distinguish macrophages from other immune lineages reveals dual identity of Langerhans cells. | Wu X, Briseño CG, Durai V, Albring JC, Haldar M, Bagadia P, Kim KW, Randolph GJ, Murphy TL, Murphy KM | The Journal of experimental medicine | 27810926 | J Exp Med | 2016 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/27810926 |
| Limited Macrophage Positional Dynamics in Progressing or Regressing Murine Atherosclerotic Plaques-Brief Report. | Williams JW, Martel C, Potteaux S, Esaulova E, Ingersoll MA, Elvington A, Saunders BT, Huang LH, Habenicht AJ, Zinselmeyer BH, Randolph GJ | Arteriosclerosis, thrombosis, and vascular biology | 29903736 | Arterioscler Thromb Vasc Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29903736 |
| Macrophage Biology, Classification, and Phenotype in Cardiovascular Disease: JACC Macrophage in CVD Series (Part 1). | Williams JW, Giannarelli C, Rahman A, Randolph GJ, Kovacic JC | Journal of the American College of Cardiology | 30360826 | J Am Coll Cardiol | 2018 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/30360826 |
| Peripheral nerve resident macrophages share tissue-specific programming and features of activated microglia. | Wang PL, Yim AKY, Kim KW, Avey D, Czepielewski RS, Colonna M, Milbrandt J, Randolph GJ | Nature communications | 32439942 | Nat Commun | 2020 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/32439942 |
| Postprandial Chylomicron Output and Transport Through Intestinal Lymphatics Are Not Impaired in Active Crohn's Disease. | Huang LH, Deepak P, Ciorba MA, Mittendorfer B, Patterson BW, Randolph GJ | Gastroenterology | 32681923 | Gastroenterology | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/32681923 |
| CXCR4-Binding Positron Emission Tomography Tracers Link Monocyte Recruitment and Endothelial Injury in Murine Atherosclerosis. | Baba O, Huang LH, Elvington A, Szpakowska M, Sultan D, Heo GS, Zhang X, Luehmann H, Detering L, Chevigne A, Liu Y, Randolph GJ | Arteriosclerosis, thrombosis, and vascular biology | 33327748 | Arterioscler Thromb Vasc Biol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33327748 |
| Myeloid-specific Asxl2 deletion limits diet-induced obesity by regulating energy expenditure. | Zou W, Rohatgi N, Brestoff JR, Moley JR, Li Y, Williams JW, Alippe Y, Pan H, Pietka TA, Mbalaviele G, Newberry EP, Davidson NO, Dey A, Shoghi KI, Head RD, Wickline SA, Randolph GJ, Abumrad NA, Teitelbaum SL | The Journal of clinical investigation | 32310225 | J Clin Invest | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/32310225 |
| Myeloid cells pave the way for lymphatic system development and maintenance. | Ivanov S, Randolph GJ | Pflugers Archiv : European journal of physiology | 28220247 | Pflugers Arch | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28220247 |
| Thermoneutrality but Not UCP1 Deficiency Suppresses Monocyte Mobilization Into Blood. | Williams JW, Elvington A, Ivanov S, Kessler S, Luehmann H, Baba O, Saunders BT, Kim KW, Johnson MW, Craft CS, Choi JH, Sorci-Thomas MG, Zinselmeyer BH, Brestoff JR, Liu Y, Randolph GJ | Circulation research | 28696252 | Circ Res | 2017 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/28696252 |
| Interleukin-17 Drives Interstitial Entrapment of Tissue Lipoproteins in Experimental Psoriasis. | Huang LH, Zinselmeyer BH, Chang CH, Saunders BT, Elvington A, Baba O, Broekelmann TJ, Qi L, Rueve JS, Swartz MA, Kim BS, Mecham RP, Wiig H, Thomas MJ, Sorci-Thomas MG, Randolph GJ | Cell metabolism | 30415924 | Cell Metab | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30415924 |
| The Lymphatic System: Integral Roles in Immunity. | Randolph GJ, Ivanov S, Zinselmeyer BH, Scallan JP | Annual review of immunology | 27860528 | Annu Rev Immunol | 2017 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/27860528 |
| Expression of factor V by resident macrophages boosts host defense in the peritoneal cavity. | Zhang N, Czepielewski RS, Jarjour NN, Erlich EC, Esaulova E, Saunders BT, Grover SP, Cleuren AC, Broze GJ, Edelson BT, Mackman N, Zinselmeyer BH, Randolph GJ | The Journal of experimental medicine | 31048328 | J Exp Med | 2019 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/31048328 |
| Lymphoid Aggregates Remodel Lymphatic Collecting Vessels that Serve Mesenteric Lymph Nodes in Crohn Disease. | Randolph GJ, Bala S, Rahier JF, Johnson MW, Wang PL, Nalbantoglu I, Dubuquoy L, Chau A, Pariente B, Kartheuser A, Zinselmeyer BH, Colombel JF | The American journal of pathology | 27746181 | Am J Pathol | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27746181 |
| Tissue-Resident Macrophages in Pancreatic Ductal Adenocarcinoma Originate from Embryonic Hematopoiesis and Promote Tumor Progression. | Zhu Y, Herndon JM, Sojka DK, Kim KW, Knolhoff BL, Zuo C, Cullinan DR, Luo J, Bearden AR, Lavine KJ, Yokoyama WM, Hawkins WG, Fields RC, Randolph GJ, DeNardo DG | Immunity | 28813661 | Immunity | 2017 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/28813661 |
| A Polecat's View of Patrolling Monocytes. | Williams JW, Randolph GJ, Zinselmeyer BH | Circulation research | 28546349 | Circ Res | 2017 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/28546349 |
| Cholesterol Accumulation in Dendritic Cells Links the Inflammasome to Acquired Immunity. | Westerterp M, Gautier EL, Ganda A, Molusky MM, Wang W, Fotakis P, Wang N, Randolph GJ, D'Agati VD, Yvan-Charvet L, Tall AR | Cell metabolism | 28479366 | Cell Metab | 2017 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/28479366 |
| MHC II+ resident peritoneal and pleural macrophages rely on IRF4 for development from circulating monocytes. | Kim KW, Williams JW, Wang YT, Ivanov S, Gilfillan S, Colonna M, Virgin HW, Gautier EL, Randolph GJ | The Journal of experimental medicine | 27551152 | J Exp Med | 2016 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/27551152 |
| The Lymphatic Vasculature in the 21(st) Century: Novel Functional Roles in Homeostasis and Disease. | Oliver G, Kipnis J, Randolph GJ, Harvey NL | Cell | 32707093 | Cell | 2020 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/32707093 |
| Limited proliferation capacity of aortic intima resident macrophages requires monocyte recruitment for atherosclerotic plaque progression. | Williams JW, Zaitsev K, Kim KW, Ivanov S, Saunders BT, Schrank PR, Kim K, Elvington A, Kim SH, Tucker CG, Wohltmann M, Fife BT, Epelman S, Artyomov MN, Lavine KJ, Zinselmeyer BH, Choi JH, Randolph GJ | Nature immunology | 32895539 | Nat Immunol | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32895539 |
| LYVE1+ macrophages of murine peritoneal mesothelium promote omentum-independent ovarian tumor growth. | Zhang N, Kim SH, Gainullina A, Erlich EC, Onufer EJ, Kim J, Czepielewski RS, Helmink BA, Dominguez JR, Saunders BT, Ding J, Williams JW, Jiang JX, Segal BH, Zinselmeyer BH, Randolph GJ, Kim KW | The Journal of experimental medicine | 34714329 | J Exp Med | 2021 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/34714329 |
| Enterically derived high-density lipoprotein restrains liver injury through the portal vein. | Han YH, Onufer EJ, Huang LH, Sprung RW, Davidson WS, Czepielewski RS, Wohltmann M, Sorci-Thomas MG, Warner BW, Randolph GJ | Science (New York, N.Y.) | 34437091 | Science | 2021 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/34437091 |
| Cytokine Circuits in Cardiovascular Disease. | Williams JW, Huang LH, Randolph GJ | Immunity | 30995508 | Immunity | 2019 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/30995508 |
| Lymph nodes go with the flow. | Czepielewski RS, Randolph GJ | The Journal of experimental medicine | 30355618 | J Exp Med | 2018 Nov 5 | https://www.ncbi.nlm.nih.gov/pubmed/30355618 |
| Liver injury after small bowel resection is prevented in obesity-resistant 129S1/SvImJ mice. | Onufer EJ, Han YH, Courtney C, Steinberger A, Tecos M, Sutton S, Sescleifer A, Ou J, Sanguinetti Czepielewski R, Randolph GJ, Warner BW | American journal of physiology. Gastrointestinal and liver physiology | 33729834 | Am J Physiol Gastrointest Liver Physiol | 2021 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/33729834 |
| Clutch Control: Changing the Speed and Direction of CAR-T Cell Therapy. | Nobili A, Kobayashi A, Gedeon PC, Novina CD | Journal of cancer immunology | 36531912 | J Cancer Immunol (Wilmington) | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36531912 |
| Protein engineering strategies for improving the selective methylation of target CpG sites by a dCas9-directed cytosine methyltransferase in bacteria. | Xiong T, Rohm D, Workman RE, Roundtree L, Novina CD, Timp W, Ostermeier M | PloS one | 30562388 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30562388 |
| Targeted DNA methylation in human cells using engineered dCas9-methyltransferases. | Xiong T, Meister GE, Workman RE, Kato NC, Spellberg MJ, Turker F, Timp W, Ostermeier M, Novina CD | Scientific reports | 28751638 | Sci Rep | 2017 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/28751638 |
| Nuclear Localization of Mitochondrial TCA Cycle Enzymes as a Critical Step in Mammalian Zygotic Genome Activation. | Nagaraj R, Sharpley MS, Chi F, Braas D, Zhou Y, Kim R, Clark AT, Banerjee U | Cell | 28086092 | Cell | 2017 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/28086092 |
| Accelerated postnatal growth increases lipogenic gene expression and adipocyte size in low-birth weight mice. | Isganaitis E, Jimenez-Chillaron J, Woo M, Chow A, DeCoste J, Vokes M, Liu M, Kasif S, Zavacki AM, Leshan RL, Myers MG, Patti ME | Diabetes.. | 19208909 | Diabetes | 2009 May | https://www.ncbi.nlm.nih.gov/pubmed/19208909 |
| Maternal and offspring pools of osteocalcin influence brain development and functions. | Oury F, Khrimian L, Denny CA, Gardin A, Chamouni A, Goeden N, Huang YY, Lee H, Srinivas P, Gao XB, Suyama S, Langer T, Mann JJ, Horvath TL, Bonnin A, Karsenty G | Cell | 24074871 | Cell | 2013 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/24074871 |
| Neonatal insulin action impairs hypothalamic neurocircuit formation in response to maternal high-fat feeding. | Vogt MC, Paeger L, Hess S, Steculorum SM, Awazawa M, Hampel B, Neupert S, Nicholls HT, Mauer J, Hausen AC, Predel R, Kloppenburg P, Horvath TL, Brüning JC | Cell | 24462248 | Cell | 2014 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/24462248 |
| Hunger-promoting hypothalamic neurons modulate effector and regulatory T-cell responses. | Matarese G, Procaccini C, Menale C, Kim JG, Kim JD, Diano S, Diano N, De Rosa V, Dietrich MO, Horvath TL | Proceedings of the National Academy of Sciences of the United States of America | 23530205 | Proc Natl Acad Sci U S A | 2013 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/23530205 |
| AgRP neurons: a switch between peripheral carbohydrate and lipid utilization. | Varela L, Horvath TL | The EMBO journal | 23085989 | EMBO J | 2012 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/23085989 |
| Leptin and insulin pathways in POMC and AgRP neurons that modulate energy balance and glucose homeostasis. | Varela L, Horvath TL | EMBO reports | 23146889 | EMBO Rep | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23146889 |
| Leptin regulates glutamate and glucose transporters in hypothalamic astrocytes. | Fuente-Martín E, García-Cáceres C, Granado M, de Ceballos ML, Sánchez-Garrido MÁ, Sarman B, Liu ZW, Dietrich MO, Tena-Sempere M, Argente-Arizón P, Díaz F, Argente J, Horvath TL, Chowen JA | The Journal of clinical investigation | 23064363 | J Clin Invest | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23064363 |
| AgRP Neurons Regulate Bone Mass. | Kim JG, Sun BH, Dietrich MO, Koch M, Yao GQ, Diano S, Insogna K, Horvath TL | Cell reports | 26411686 | Cell Rep | 2015 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/26411686 |
| Hypothalamic POMC neurons promote cannabinoid-induced feeding. | Koch M, Varela L, Kim JG, Kim JD, Hernández-Nuño F, Simonds SE, Castorena CM, Vianna CR, Elmquist JK, Morozov YM, Rakic P, Bechmann I, Cowley MA, Szigeti-Buck K, Dietrich MO, Gao XB, Diano S, Horvath TL | Nature | 25707796 | Nature | 2015 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/25707796 |
| Leptin signaling in astrocytes regulates hypothalamic neuronal circuits and feeding. | Kim JG, Suyama S, Koch M, Jin S, Argente-Arizon P, Argente J, Liu ZW, Zimmer MR, Jeong JK, Szigeti-Buck K, Gao Y, Garcia-Caceres C, Yi CX, Salmaso N, Vaccarino FM, Chowen J, Diano S, Dietrich MO, Tschöp MH, Horvath TL | Nature neuroscience | 24880214 | Nat Neurosci | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24880214 |
| AgRP neurons regulate development of dopamine neuronal plasticity and nonfood-associated behaviors. | Dietrich MO, Bober J, Ferreira JG, Tellez LA, Mineur YS, Souza DO, Gao XB, Picciotto MR, Araújo I, Liu ZW, Horvath TL | Nature neuroscience | 22729177 | Nat Neurosci | 2012 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/22729177 |
| Minireview: Metabolism of female reproduction: regulatory mechanisms and clinical implications. | Seli E, Babayev E, Collins SC, Nemeth G, Horvath TL | Molecular endocrinology (Baltimore, Md.) | 24678733 | Mol Endocrinol | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24678733 |
| Modeling human cortical development in vitro using induced pluripotent stem cells. | Mariani J, Simonini MV, Palejev D, Tomasini L, Coppola G, Szekely AM, Horvath TL, Vaccarino FM | Proceedings of the National Academy of Sciences of the United States of America | 22761314 | Proc Natl Acad Sci U S A | 2012 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/22761314 |
| Sirtuin 1 and sirtuin 3: physiological modulators of metabolism. | Nogueiras R, Habegger KM, Chaudhary N, Finan B, Banks AS, Dietrich MO, Horvath TL, Sinclair DA, Pfluger PT, Tschöp MH | Physiological reviews | 22811431 | Physiol Rev | 2012 Jul | https://www.ncbi.nlm.nih.gov/pubmed/22811431 |
| Loss of autophagy in pro-opiomelanocortin neurons perturbs axon growth and causes metabolic dysregulation. | Coupé B, Ishii Y, Dietrich MO, Komatsu M, Horvath TL, Bouret SG | Cell metabolism | 22285542 | Cell Metab | 2012 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/22285542 |
| Obesity is associated with hypothalamic injury in rodents and humans. | Thaler JP, Yi CX, Schur EA, Guyenet SJ, Hwang BH, Dietrich MO, Zhao X, Sarruf DA, Izgur V, Maravilla KR, Nguyen HT, Fischer JD, Matsen ME, Wisse BE, Morton GJ, Horvath TL, Baskin DG, Tschöp MH, Schwartz MW | The Journal of clinical investigation | 22201683 | J Clin Invest | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/22201683 |
| Phosphoribosomes for fingerprinting neurons. | Dietrich MO, Horvath TL | Cell | 23178116 | Cell | 2012 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/23178116 |
| Hypothalamic control of energy balance: insights into the role of synaptic plasticity. | Dietrich MO, Horvath TL | Trends in neurosciences | 23318157 | Trends Neurosci | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23318157 |
| Limitations in anti-obesity drug development: the critical role of hunger-promoting neurons. | Dietrich MO, Horvath TL | Nature reviews. Drug discovery | 22858652 | Nat Rev Drug Discov | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22858652 |
| A marriage made to last in drug design. | Dietrich MO, Horvath TL | Nature medicine | 23223057 | Nat Med | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23223057 |
| Mitochondrial dynamics controlled by mitofusins regulate Agrp neuronal activity and diet-induced obesity. | Dietrich MO, Liu ZW, Horvath TL | Cell | 24074868 | Cell | 2013 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/24074868 |
| Nonlatching positive feedback enables robust bimodality by decoupling expression noise from the mean. | Razooky BS, Cao Y, Hansen MMK, Perelson AS, Simpson ML, Weinberger LS | PLoS biology | 29045398 | PLoS Biol | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/29045398 |
| An evolutionary role for HIV latency in enhancing viral transmission. | Rouzine IM, Weinberger AD, Weinberger LS | Cell | 25723173 | Cell | 2015 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/25723173 |
| Cytoplasmic Amplification of Transcriptional Noise Generates Substantial Cell-to-Cell Variability. | Hansen MMK, Desai RV, Simpson ML, Weinberger LS | Cell systems | 30243562 | Cell Syst | 2018 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/30243562 |
| Conflicting Selection Pressures Will Constrain Viral Escape from Interfering Particles: Principles for Designing Resistance-Proof Antivirals. | Rast LI, Rouzine IM, Rozhnova G, Bishop L, Weinberger AD, Weinberger LS | PLoS computational biology | 27152856 | PLoS Comput Biol | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27152856 |
| Attacking Latent HIV with convertibleCAR-T Cells, a Highly Adaptable Killing Platform. | Herzig E, Kim KC, Packard TA, Vardi N, Schwarzer R, Gramatica A, Deeks SG, Williams SR, Landgraf K, Killeen N, Martin DW, Weinberger LS, Greene WC | Cell | 31668804 | Cell | 2019 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/31668804 |
| Spatial tuning of acoustofluidic pressure nodes by altering net sonic velocity enables high-throughput, efficient cell sorting. | Jung SY, Notton T, Fong E, Shusteff M, Weinberger LS | Lab on a chip | 25563937 | Lab Chip | 2015 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/25563937 |
| A Bioreactor Method to Generate High-titer, Genetically Stable, Clinical-isolate Human Cytomegalovirus. | Saykally VR, Rast LI, Sasaki J, Jung SY, Bolovan-Fritts C, Weinberger LS | Bio-protocol | 29226181 | Bio Protoc | 2017 Nov 5 | https://www.ncbi.nlm.nih.gov/pubmed/29226181 |
| Fate-Regulating Circuits in Viruses: From Discovery to New Therapy Targets. | Pai A, Weinberger LS | Annual review of virology | 28800289 | Annu Rev Virol | 2017 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/28800289 |
| Transient Thresholding: A Mechanism Enabling Noncooperative Transcriptional Circuitry to Form a Switch. | Aull KH, Tanner EJ, Thomson M, Weinberger LS | Biophysical journal | 28591615 | Biophys J | 2017 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/28591615 |
| Post-Transcriptional Noise Control. | Hansen MMK, Weinberger LS | BioEssays : news and reviews in molecular, cellular and developmental biology | 31222776 | Bioessays | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/31222776 |
| A minimal fate-selection switch. | Weinberger LS | Current opinion in cell biology | 26611210 | Curr Opin Cell Biol | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26611210 |
| A Post-Transcriptional Feedback Mechanism for Noise Suppression and Fate Stabilization. | Hansen MMK, Wen WY, Ingerman E, Razooky BS, Thompson CE, Dar RD, Chin CW, Simpson ML, Weinberger LS | Cell | 29754821 | Cell | 2018 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/29754821 |
| Feedback-mediated signal conversion promotes viral fitness. | Vardi N, Chaturvedi S, Weinberger LS | Proceedings of the National Academy of Sciences of the United States of America | 30150412 | Proc Natl Acad Sci U S A | 2018 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/30150412 |
| Acetylcholine is released in the basolateral amygdala in response to predictors of reward and enhances the learning of cue-reward contingency. | Crouse RB, Kim K, Batchelor HM, Girardi EM, Kamaletdinova R, Chan J, Rajebhosale P, Pittenger ST, Role LW, Talmage DA, Jing M, Li Y, Gao XB, Mineur YS, Picciotto MR | eLife | 32945260 | Elife | 2020 Sep 18 | https://www.ncbi.nlm.nih.gov/pubmed/32945260 |
| Hippocampal knockdown of α2 nicotinic or M1 muscarinic acetylcholine receptors in C57BL/6J male mice impairs cued fear conditioning. | Mineur YS, Ernstsen C, Islam A, Lefoli Maibom K, Picciotto MR | Genes, brain, and behavior | 32447811 | Genes Brain Behav | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32447811 |
| Activity of a direct VTA to ventral pallidum GABA pathway encodes unconditioned reward value and sustains motivation for reward. | Zhou WL, Kim K, Ali F, Pittenger ST, Calarco CA, Mineur YS, Ramakrishnan C, Deisseroth K, Kwan AC, Picciotto MR | Science advances | 36260661 | Sci Adv | 2022 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/36260661 |
| ACh signaling modulates activity of the GABAergic signaling network in the basolateral amygdala and behavior in stress-relevant paradigms. | Mineur YS, Mose TN, Maibom KL, Pittenger ST, Soares AR, Wu H, Taylor SR, Huang Y, Picciotto MR | Molecular psychiatry | 36050437 | Mol Psychiatry | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36050437 |
| microRNA-33 maintains adaptive thermogenesis via enhanced sympathetic nerve activity. | Horie T, Nakao T, Miyasaka Y, Nishino T, Matsumura S, Nakazeki F, Ide Y, Kimura M, Tsuji S, Rodriguez RR, Watanabe T, Yamasaki T, Xu S, Otani C, Miyagawa S, Matsushita K, Sowa N, Omori A, Tanaka J, Nishimura C, Nishiga M, Kuwabara Y, Baba O, Watanabe S, Nishi H, Nakashima Y, Picciotto MR, Inoue H, Watanabe D, Nakamura K, Sasaki T, Kimura T, Ono K | Nature communications | 33594062 | Nat Commun | 2021 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/33594062 |
| The role of acetylcholine in negative encoding bias: Too much of a good thing? | Mineur YS, Picciotto MR | The European journal of neuroscience | 31821620 | Eur J Neurosci | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31821620 |
| Impaired hypocretin/orexin system alters responses to salient stimuli in obese male mice. | Tan Y, Hang F, Liu ZW, Stoiljkovic M, Wu M, Tu Y, Han W, Lee AM, Kelley C, Hajós M, Lu L, de Lecea L, De Araujo I, Picciotto MR, Horvath TL, Gao XB | The Journal of clinical investigation | 32516139 | J Clin Invest | 2020 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/32516139 |
| Origin and Function of Stress-Induced IL-6 in Murine Models. | Qing H, Desrouleaux R, Israni-Winger K, Mineur YS, Fogelman N, Zhang C, Rashed S, Palm NW, Sinha R, Picciotto MR, Perry RJ, Wang A | Cell | 32610084 | Cell | 2020 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/32610084 |
| Effects of nicotine on DARPP-32 and CaMKII signaling relevant to addiction. | Lee AM, Picciotto MR | Advances in pharmacology (San Diego, Calif.) | 33706940 | Adv Pharmacol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/33706940 |
| Nicotine addiction: More than just dopamine. | Kim K, Picciotto MR | Current opinion in neurobiology | 37832393 | Curr Opin Neurobiol | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37832393 |
| Cumulative Effects of Social Stress on Reward-Guided Actions and Prefrontal Cortical Activity. | Barthas F, Hu MY, Siniscalchi MJ, Ali F, Mineur YS, Picciotto MR, Kwan AC | Biological psychiatry | 32276717 | Biol Psychiatry | 2020 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/32276717 |
| Hippocampal acetylcholine modulates stress-related behaviors independent of specific cholinergic inputs. | Mineur YS, Mose TN, Vanopdenbosch L, Etherington IM, Ogbejesi C, Islam A, Pineda CM, Crouse RB, Zhou W, Thompson DC, Bentham MP, Picciotto MR | Molecular psychiatry | 34997190 | Mol Psychiatry | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34997190 |
| Sex Differences in the Ventral Tegmental Area and Nucleus Accumbens Proteome at Baseline and Following Nicotine Exposure. | Lee AM, Mansuri MS, Wilson RS, Lam TT, Nairn AC, Picciotto MR | Frontiers in molecular neuroscience | 34335180 | Front Mol Neurosci | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34335180 |
| Muscarinic antagonists impair multiple aspects of operant discrimination learning and performance. | Yousuf H, Girardi EM, Crouse RB, Picciotto MR | Neuroscience letters | 36529388 | Neurosci Lett | 2023 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/36529388 |
| The following article for this Special Issue was previously published and can be found in its respective issue online: "How can I measure brain acetylcholine levels in vivo? Advantages and caveats of commonly used approaches". | Journal of neurochemistry | 38607971 | J Neurochem | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/38607971 | |
| Variability in nicotine conditioned place preference and stress-induced reinstatement in mice: Effects of sex, initial chamber preference, and guanfacine. | Lee AM, Calarco CA, McKee SA, Mineur YS, Picciotto MR | Genes, brain, and behavior | 31364813 | Genes Brain Behav | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31364813 |
| Sex differences in stress-induced alcohol intake: a review of preclinical studies focused on amygdala and inflammatory pathways. | Mineur YS, Garcia-Rivas V, Thomas MA, Soares AR, McKee SA, Picciotto MR | Psychopharmacology | 35359158 | Psychopharmacology (Berl) | 2022 Jul | https://www.ncbi.nlm.nih.gov/pubmed/35359158 |
| How can I measure brain acetylcholine levels in vivo? Advantages and caveats of commonly used approaches. | Mineur YS, Picciotto MR | Journal of neurochemistry | 37621094 | J Neurochem | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37621094 |
| Functionally refined encoding of threat memory by distinct populations of basal forebrain cholinergic projection neurons. | Rajebhosale P, Ananth MR, Kim R, Crouse R, Jiang L, López-Hernández G, Zhong C, Arty C, Wang S, Jone A, Desai NS, Li Y, Picciotto MR, Role LW, Talmage DA | eLife | 38363713 | Elife | 2024 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/38363713 |
| Vertical silicon nanowires as a universal platform for delivering biomolecules into living cells. | Shalek AK, Robinson JT, Karp ES, Lee JS, Ahn DR, Yoon MH, Sutton A, Jorgolli M, Gertner RS, Gujral TS, MacBeath G, Yang EG, Park H | Proceedings of the National Academy of Sciences of the United States of America | 20080678 | Proc Natl Acad Sci U S A | 2010 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/20080678 |
| Impact of delay in asthma diagnosis on health care service use. | Lynch BA, Van Norman CA, Jacobson RM, Weaver AL, Juhn YJ | Allergy and asthma proceedings | 20819315 | Allergy Asthma Proc | 2010 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/20819315 |
| Structural basis for enhanced HIV-1 neutralization by a dimeric immunoglobulin G form of the glycan-recognizing antibody 2G12. | Wu Y, West AP Jr, Kim HJ, Thornton ME, Ward AB, Bjorkman PJ | Cell reports | 24316082 | Cell Rep | 2013 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/24316082 |
| Circadian biology: a neuropeptide is bound to activate its receptor. | Taghert PH | Current biology : CB | 19706280 | Curr Biol | 2009 Aug 25 | https://www.ncbi.nlm.nih.gov/pubmed/19706280 |
| Lithium- and valproate-induced alterations in circadian locomotor behavior in Drosophila. | Dokucu ME, Yu L, Taghert PH | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 15956996 | Neuropsychopharmacology | 2005 Dec | https://www.ncbi.nlm.nih.gov/pubmed/15956996 |
| Drosophila uses two distinct neuropeptide amidating enzymes, dPAL1 and dPAL2. | Han M, Park D, Vanderzalm PJ, Mains RE, Eipper BA, Taghert PH | Journal of neurochemistry | 15198673 | J Neurochem | 2004 Jul | https://www.ncbi.nlm.nih.gov/pubmed/15198673 |
| Organization and expression of the Drosophila Phe-Met-Arg-Phe-NH2 neuropeptide gene. | Schneider LE, Taghert PH | The Journal of biological chemistry | 2324103 | J Biol Chem | 1990 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/2324103 |
| Neurogenesis in the insect enteric nervous system: generation of premigratory neurons from an epithelial placode. | Copenhaver PF, Taghert PH | Development (Cambridge, England) | 2209463 | Development | 1990 May | https://www.ncbi.nlm.nih.gov/pubmed/2209463 |
| How does the circadian clock send timing information to the brain? | Taghert PH | Seminars in cell & developmental biology | 11463217 | Semin Cell Dev Biol | 2001 Aug | https://www.ncbi.nlm.nih.gov/pubmed/11463217 |
| The bHLH protein Dimmed controls neuroendocrine cell differentiation in Drosophila. | Hewes RS, Park D, Gauthier SA, Schaefer AM, Taghert PH | Development (Cambridge, England) | 12642483 | Development | 2003 May | https://www.ncbi.nlm.nih.gov/pubmed/12642483 |
| A peritracheal neuropeptide system in insects: release of myomodulin-like peptides at ecdysis. | O'Brien MA, Taghert PH | The Journal of experimental biology | 9405303 | J Exp Biol | 1998 Jan | https://www.ncbi.nlm.nih.gov/pubmed/9405303 |
| FMRFamide neuropeptides and neuropeptide-associated enzymes in Drosophila. | Taghert PH | Microscopy research and technique | 10332726 | Microsc Res Tech | 1999 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/10332726 |
| Interaction of Drosophila melanogaster prohormone convertase 2 and 7B2. Insect cell-specific processing and secretion. | Hwang JR, Siekhaus DE, Fuller RS, Taghert PH, Lindberg I | The Journal of biological chemistry | 10749852 | J Biol Chem | 2000 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/10749852 |
| Pair-rule expression of a cell surface molecule during gastrulation of the moth embryo. | Carr JN, Taghert PH | Development (Cambridge, England) | 2627891 | Development | 1989 Sep | https://www.ncbi.nlm.nih.gov/pubmed/2627891 |
| Molecular genetic analysis of the FMRFamide-related neuropeptides in Drosophila. | Taghert PH, O'Brien MA, Schneider LE, Roberts MS | Progress in brain research | 1302876 | Prog Brain Res | 1992 | https://www.ncbi.nlm.nih.gov/pubmed/1302876 |
| Developmental neurobiology. Trophic factor theory matures. | Lichtman JW, Taghert PH | Nature | 3031503 | Nature | 1987 Mar 26-Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/3031503 |
| An immunocytochemical study of the FMRFamide neuropeptide gene products in Drosophila. | Schneider LE, Sun ET, Garland DJ, Taghert PH | The Journal of comparative neurology | 8282851 | J Comp Neurol | 1993 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/8282851 |
| A novel diuretic hormone receptor in Drosophila: evidence for conservation of CGRP signaling. | Johnson EC, Shafer OT, Trigg JS, Park J, Schooley DA, Dow JA, Taghert PH | The Journal of experimental biology | 15781884 | J Exp Biol | 2005 Apr | https://www.ncbi.nlm.nih.gov/pubmed/15781884 |
| Synchronous Drosophila circadian pacemakers display nonsynchronous Ca²⁺ rhythms in vivo. | Liang X, Holy TE, Taghert PH | Science (New York, N.Y.) | 26917772 | Science | 2016 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/26917772 |
| Origins of the insect enteric nervous system: differentiation of the enteric ganglia from a neurogenic epithelium. | Copenhaver PF, Taghert PH | Development (Cambridge, England) | 1811931 | Development | 1991 Dec | https://www.ncbi.nlm.nih.gov/pubmed/1811931 |
| In situ hybridization analysis of the FMRFamide neuropeptide gene in Drosophila. I. Restricted expression in embryonic and larval stages. | Schneider LE, O'Brien MA, Taghert PH | The Journal of comparative neurology | 1672876 | J Comp Neurol | 1991 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/1672876 |
| Development of the enteric nervous system in the moth. I. Diversity of cell types and the embryonic expression of FMRFamide-related neuropeptides. | Copenhaver PF, Taghert PH | Developmental biology | 2909410 | Dev Biol | 1989 Jan | https://www.ncbi.nlm.nih.gov/pubmed/2909410 |
| Developmental neurobiology. Axon outgrowth in vertebrates. | Taghert PH, Lichtman JW | Nature | 3960104 | Nature | 1986 Mar 20-26 | https://www.ncbi.nlm.nih.gov/pubmed/3960104 |
| Guidance of pioneer growth cones: filopodial contacts and coupling revealed with an antibody to Lucifer Yellow. | Taghert PH, Bastiani MJ, Ho RK, Goodman CS | Developmental biology | 7152111 | Dev Biol | 1982 Dec | https://www.ncbi.nlm.nih.gov/pubmed/7152111 |
| A pdf neuropeptide gene mutation and ablation of PDF neurons each cause severe abnormalities of behavioral circadian rhythms in Drosophila. | Renn SC, Park JH, Rosbash M, Hall JC, Taghert PH | Cell | 10619432 | Cell | 1999 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/10619432 |
| Cell type-specific regulation of the Drosophila FMRF-NH2 neuropeptide gene by Apterous, a LIM homeodomain transcription factor. | Benveniste RJ, Thor S, Thomas JB, Taghert PH | Development (Cambridge, England) | 9806924 | Development | 1998 Dec | https://www.ncbi.nlm.nih.gov/pubmed/9806924 |
| Organization of the Drosophila circadian control circuit. | Nitabach MN, Taghert PH | Current biology : CB | 18211849 | Curr Biol | 2008 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/18211849 |
| PDF receptor signaling in Drosophila contributes to both circadian and geotactic behaviors. | Mertens I, Vandingenen A, Johnson EC, Shafer OT, Li W, Trigg JS, De Loof A, Schoofs L, Taghert PH | Neuron | 16242402 | Neuron | 2005 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/16242402 |
| Neuroscience. A CRY to rise. | Im SH, Taghert PH | Science (New York, N.Y.) | 21415342 | Science | 2011 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/21415342 |
| Polyphasic circadian neural circuits drive differential activities in multiple downstream rhythmic centers. | Liang X, Holy TE, Taghert PH | Current biology : CB | 36610393 | Curr Biol | 2023 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/36610393 |
| A Series of Suppressive Signals within the Drosophila Circadian Neural Circuit Generates Sequential Daily Outputs. | Liang X, Holy TE, Taghert PH | Neuron | 28552314 | Neuron | 2017 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/28552314 |
| Drosophila neuropeptide signaling. | Taghert PH, Veenstra JA | Advances in genetics | 12779250 | Adv Genet | 2003 | https://www.ncbi.nlm.nih.gov/pubmed/12779250 |
| Circadian rhythms: in the loop at last. | Van Gelder RN, Herzog ED, Schwartz WJ, Taghert PH | Science (New York, N.Y.) | 12791982 | Science | 2003 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/12791982 |
| Formation of the transverse nerve in moth embryos. I. A scaffold of nonneuronal cells prefigures the nerve. | Carr JN, Taghert PH | Developmental biology | 3058542 | Dev Biol | 1988 Dec | https://www.ncbi.nlm.nih.gov/pubmed/3058542 |
| Cell determination and regulation during development of neuroblasts and neurones in grasshopper embryo. | Taghert PH, Doe CQ, Goodman CS | Nature | 6690996 | Nature | 1984 Jan 12-18 | https://www.ncbi.nlm.nih.gov/pubmed/6690996 |
| Segment-specific modifications of a neuropeptide phenotype in embryonic neurons of the moth, Manduca sexta. | Wall JB, Taghert PH | The Journal of comparative neurology | 1918442 | J Comp Neurol | 1991 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/1918442 |
| In situ hybridization analysis of the FMRFamide neuropeptide gene in Drosophila. II. Constancy in the cellular pattern of expression during metamorphosis. | O'Brien MA, Schneider LE, Taghert PH | The Journal of comparative neurology | 1672877 | J Comp Neurol | 1991 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/1672877 |
| The genetic analysis of neuropeptide signaling systems. | O'Brien MA, Taghert PH | Zoological science | 7765852 | Zoolog Sci | 1994 Oct | https://www.ncbi.nlm.nih.gov/pubmed/7765852 |
| Circadian rhythms: biological clocks work in phospho-time. | Duvall LB, Taghert PH | Current biology : CB | 21549947 | Curr Biol | 2011 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/21549947 |
| Identification of Drosophila neuropeptide receptors by G protein-coupled receptors-beta-arrestin2 interactions. | Johnson EC, Bohn LM, Barak LS, Birse RT, Nässel DR, Caron MG, Taghert PH | The Journal of biological chemistry | 14555656 | J Biol Chem | 2003 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/14555656 |
| Drosophila CG8422 encodes a functional diuretic hormone receptor. | Johnson EC, Bohn LM, Taghert PH | The Journal of experimental biology | 14747406 | J Exp Biol | 2004 Feb | https://www.ncbi.nlm.nih.gov/pubmed/14747406 |
| Cell type-specific regulatory sequences control expression of the Drosophila FMRF-NH2 neuropeptide gene. | Benveniste RJ, Taghert PH | Journal of neurobiology | 10084686 | J Neurobiol | 1999 Mar | https://www.ncbi.nlm.nih.gov/pubmed/10084686 |
| Genetic analysis of the Drosophila ellipsoid body neuropil: organization and development of the central complex. | Renn SC, Armstrong JD, Yang M, Wang Z, An X, Kaiser K, Taghert PH | Journal of neurobiology | 10512977 | J Neurobiol | 1999 Nov 5 | https://www.ncbi.nlm.nih.gov/pubmed/10512977 |
| PHM is required for normal developmental transitions and for biosynthesis of secretory peptides in Drosophila. | Jiang N, Kolhekar AS, Jacobs PS, Mains RE, Eipper BA, Taghert PH | Developmental biology | 10993678 | Dev Biol | 2000 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/10993678 |
| Metamorphosis of tangential visual system neurons in Drosophila. | Taghert PH, Roberts ME, Renn SC, Jacobs PS | Developmental biology | 10837134 | Dev Biol | 2000 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/10837134 |
| Regulators acting in combinatorial codes also act independently in single differentiating neurons. | Allan DW, Park D, St Pierre SE, Taghert PH, Thor S | Neuron | 15748845 | Neuron | 2005 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/15748845 |
| Cell type-specific transcriptional regulation of the Drosophila FMRFamide neuropeptide gene. | Schneider LE, Roberts MS, Taghert PH | Neuron | 8439413 | Neuron | 1993 Feb | https://www.ncbi.nlm.nih.gov/pubmed/8439413 |
| Circadian pacemaker neurons display cophasic rhythms in basal calcium level and in fast calcium fluctuations. | Liang X, Holy TE, Taghert PH | Proceedings of the National Academy of Sciences of the United States of America | 35446620 | Proc Natl Acad Sci U S A | 2022 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/35446620 |
| Drosophila MEF2, a transcription factor that is essential for myogenesis. | Bour BA, O'Brien MA, Lockwood WL, Goldstein ES, Bodmer R, Taghert PH, Abmayr SM, Nguyen HT | Genes & development | 7729689 | Genes Dev | 1995 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/7729689 |
| Widely distributed Drosophila G-protein-coupled receptor (CG7887) is activated by endogenous tachykinin-related peptides. | Birse RT, Johnson EC, Taghert PH, Nässel DR | Journal of neurobiology | 16193493 | J Neurobiol | 2006 Jan | https://www.ncbi.nlm.nih.gov/pubmed/16193493 |
| The timing of initial neuropeptide expression by an identified insect neuron does not depend on interactions with its normal peripheral target. | Wall JB, Taghert PH | Journal of neurobiology | 1795159 | J Neurobiol | 1991 Dec | https://www.ncbi.nlm.nih.gov/pubmed/1795159 |
| Development of the enteric nervous system in the moth. II. Stereotyped cell migration precedes the differentiation of embryonic neurons. | Copenhaver PF, Taghert PH | Developmental biology | 2909411 | Dev Biol | 1989 Jan | https://www.ncbi.nlm.nih.gov/pubmed/2909411 |
| Formation of the transverse nerve in moth embryos. II. Stereotyped growth by the axons of identified neuroendocrine neurons. | Carr JN, Taghert PH | Developmental biology | 3197922 | Dev Biol | 1988 Dec | https://www.ncbi.nlm.nih.gov/pubmed/3197922 |
| Characterization and cloning of tripeptidyl peptidase II from the fruit fly, Drosophila melanogaster. | Renn SC, Tomkinson B, Taghert PH | The Journal of biological chemistry | 9668104 | J Biol Chem | 1998 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/9668104 |
| Mechanisms of clock output in the Drosophila circadian pacemaker system. | Taghert PH, Shafer OT | Journal of biological rhythms | 17107935 | J Biol Rhythms | 2006 Dec | https://www.ncbi.nlm.nih.gov/pubmed/17107935 |
| Ap-let neurons--a peptidergic circuit potentially controlling ecdysial behavior in Drosophila. | Park D, Han M, Kim YC, Han KA, Taghert PH | Developmental biology | 15081360 | Dev Biol | 2004 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/15081360 |
| Peptidergic neurosecretory cells in insects: organization and control by the bHLH protein DIMMED. | Park D, Taghert PH | General and comparative endocrinology | 19135054 | Gen Comp Endocrinol | 2009 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/19135054 |
| Morning and Evening Circadian Pacemakers Independently Drive Premotor Centers via a Specific Dopamine Relay. | Liang X, Ho MCW, Zhang Y, Li Y, Wu MN, Holy TE, Taghert PH | Neuron | 30981533 | Neuron | 2019 May 22 | https://www.ncbi.nlm.nih.gov/pubmed/30981533 |
| Transcriptomic landscape of mammalian ventral pallidum at single-cell resolution. | Yang L, Fang LZ, Lynch MR, Xu CS, Hahm H, Zhang Y, Heitmeier MR, Costa V, Samineni VK, Creed MC | bioRxiv : the preprint server for biology | 38826431 | bioRxiv | 2024 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/38826431 |
| Neuronal Activity and CaMKII Regulate Kinesin-Mediated Transport of Synaptic AMPARs. | Hoerndli FJ, Wang R, Mellem JE, Kallarackal A, Brockie PJ, Thacker C, Madsen DM, Maricq AV | Neuron | 25843407 | Neuron | 2015 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/25843407 |
| Mobile AMPARs are required for synaptic plasticity. | Hoerndli FJ, Kallarackal AJ, Maricq AV | Channels (Austin, Tex.) | 26359683 | Channels (Austin) | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26359683 |
| NRAP-1 Is a Presynaptically Released NMDA Receptor Auxiliary Protein that Modifies Synaptic Strength. | Lei N, Mellem JE, Brockie PJ, Madsen DM, Maricq AV | Neuron | 29224722 | Neuron | 2017 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/29224722 |
| MAPK signaling and a mobile scaffold complex regulate AMPA receptor transport to modulate synaptic strength. | Hoerndli FJ, Brockie PJ, Wang R, Mellem JE, Kallarackal A, Doser RL, Pierce DM, Madsen DM, Maricq AV | Cell reports | 35354038 | Cell Rep | 2022 Mar 29 | https://www.ncbi.nlm.nih.gov/pubmed/35354038 |
| Kinesin-1 regulates synaptic strength by mediating the delivery, removal, and redistribution of AMPA receptors. | Hoerndli FJ, Maxfield DA, Brockie PJ, Mellem JE, Jensen E, Wang R, Madsen DM, Maricq AV | Neuron | 24360545 | Neuron | 2013 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/24360545 |
| CD47 prevents Rac-mediated phagocytosis through Vav1 dephosphorylation. | Miller WD, Mishra AK, Sheedy CJ, Bond A, Gardner BM, Montell DJ, Morrissey MA | bioRxiv : the preprint server for biology | 39990418 | bioRxiv | 2025 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/39990418 |
| AND-gated protease-activated nanosensors for programmable detection of anti-tumour immunity. | Sivakumar A, Phuengkham H, Rajesh H, Mac QD, Rogers LC, Silva Trenkle AD, Bawage SS, Hincapie R, Li Z, Vainikos S, Lee I, Xue M, Qiu P, Finn MG, Kwong GA | Nature nanotechnology | 39753733 | Nat Nanotechnol | 2025 Mar | https://www.ncbi.nlm.nih.gov/pubmed/39753733 |
| Looking backward in time to define the chronology of metastasis. | Hu Z, Curtis C | Nature communications | 32587245 | Nat Commun | 2020 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/32587245 |
| A CRISPR/Cas9-Engineered ARID1A-Deficient Human Gastric Cancer Organoid Model Reveals Essential and Nonessential Modes of Oncogenic Transformation. | Lo YH, Kolahi KS, Du Y, Chang CY, Krokhotin A, Nair A, Sobba WD, Karlsson K, Jones SJ, Longacre TA, Mah AT, Tercan B, Sockell A, Xu H, Seoane JA, Chen J, Shmulevich I, Weissman JS, Curtis C, Califano A, Fu H, Crabtree GR, Kuo CJ | Cancer discovery | 33451982 | Cancer Discov | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33451982 |
| Multi-cancer analysis of clonality and the timing of systemic spread in paired primary tumors and metastases. | Hu Z, Li Z, Ma Z, Curtis C | Nature genetics | 32424352 | Nat Genet | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32424352 |
| The Mettl3 epitranscriptomic writer amplifies p53 stress responses. | Raj N, Wang M, Seoane JA, Zhao RL, Kaiser AM, Moonie NA, Demeter J, Boutelle AM, Kerr CH, Mulligan AS, Moffatt C, Zeng SX, Lu H, Barna M, Curtis C, Chang HY, Jackson PK, Attardi LD | Molecular cell | 35512709 | Mol Cell | 2022 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/35512709 |
| PhyloVelo enhances transcriptomic velocity field mapping using monotonically expressed genes. | Wang K, Hou L, Wang X, Zhai X, Lu Z, Zi Z, Zhai W, He X, Curtis C, Zhou D, Hu Z | Nature biotechnology | 37524958 | Nat Biotechnol | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/37524958 |
| Functional screening of amplification outlier oncogenes in organoid models of early tumorigenesis. | Salahudeen AA, Seoane JA, Yuki K, Mah AT, Smith AR, Kolahi K, De la O SM, Hart DJ, Ding J, Ma Z, Barkal SA, Shukla ND, Zhang CH, Cantrell MA, Batish A, Usui T, Root DE, Hahn WC, Curtis C, Kuo CJ | Cell reports | 37922313 | Cell Rep | 2023 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/37922313 |
| A High-Dimensional Window into the Micro-Environment of Triple Negative Breast Cancer. | Nederlof I, Horlings HM, Curtis C, Kok M | Cancers | 33467084 | Cancers (Basel) | 2021 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/33467084 |
| Cancers adapt to their mutational load by buffering protein misfolding stress. | Tilk S, Frydman J, Curtis C, Petrov DA | eLife | 39585785 | Elife | 2024 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/39585785 |
| Germline-mediated immunoediting sculpts breast cancer subtypes and metastatic proclivity. | Houlahan KE, Khan A, Greenwald NF, Vivas CS, West RB, Angelo M, Curtis C | Science (New York, N.Y.) | 38815010 | Science | 2024 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/38815010 |
| Dynamics of breast-cancer relapse reveal late-recurring ER-positive genomic subgroups. | Rueda OM, Sammut SJ, Seoane JA, Chin SF, Caswell-Jin JL, Callari M, Batra R, Pereira B, Bruna A, Ali HR, Provenzano E, Liu B, Parisien M, Gillett C, McKinney S, Green AR, Murphy L, Purushotham A, Ellis IO, Pharoah PD, Rueda C, Aparicio S, Caldas C, Curtis C | Nature | 30867590 | Nature | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30867590 |
| Cell of Origin Influences Pancreatic Cancer Subtype. | Flowers BM, Xu H, Mulligan AS, Hanson KJ, Seoane JA, Vogel H, Curtis C, Wood LD, Attardi LD | Cancer discovery | 34009137 | Cancer Discov | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34009137 |
| Most cancers carry a substantial deleterious load due to Hill-Robertson interference. | Tilk S, Tkachenko S, Curtis C, Petrov DA, McFarland CD | eLife | 36047771 | Elife | 2022 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/36047771 |
| Germline-mediated immunoediting sculpts breast cancer subtypes and metastatic proclivity. | Houlahan KE, Khan A, Greenwald NF, West RB, Angelo M, Curtis C | bioRxiv : the preprint server for biology | 36993286 | bioRxiv | 2023 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/36993286 |
| Characterizing the ecological and evolutionary dynamics of cancer. | Zahir N, Sun R, Gallahan D, Gatenby RA, Curtis C | Nature genetics | 32719518 | Nat Genet | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32719518 |
| Quantitative evidence for early metastatic seeding in colorectal cancer. | Hu Z, Ding J, Ma Z, Sun R, Seoane JA, Scott Shaffer J, Suarez CJ, Berghoff AS, Cremolini C, Falcone A, Loupakis F, Birner P, Preusser M, Lenz HJ, Curtis C | Nature genetics | 31209394 | Nat Genet | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/31209394 |
| Deterministic evolution and stringent selection during preneoplasia. | Karlsson K, Przybilla MJ, Kotler E, Khan A, Xu H, Karagyozova K, Sockell A, Wong WH, Liu K, Mah A, Lo YH, Lu B, Houlahan KE, Ma Z, Suarez CJ, Barnes CP, Kuo CJ, Curtis C | Nature | 37258665 | Nature | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37258665 |
| A microwell platform for high-throughput longitudinal phenotyping and selective retrieval of organoids. | Sockell A, Wong W, Longwell S, Vu T, Karlsson K, Mokhtari D, Schaepe J, Lo YH, Cornelius V, Kuo C, Van Valen D, Curtis C, Fordyce PM | Cell systems | 37734323 | Cell Syst | 2023 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/37734323 |
| Integrator restrains paraspeckles assembly by promoting isoform switching of the lncRNA NEAT1. | Barra J, Gaidosh GS, Blumenthal E, Beckedorff F, Tayari MM, Kirstein N, Karakach TK, Jensen TH, Impens F, Gevaert K, Leucci E, Shiekhattar R, Marine JC | Science advances | 32923585 | Sci Adv | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32923585 |
| NELF Regulates a Promoter-Proximal Step Distinct from RNA Pol II Pause-Release. | Aoi Y, Smith ER, Shah AP, Rendleman EJ, Marshall SA, Woodfin AR, Chen FX, Shiekhattar R, Shilatifard A | Molecular cell | 32155413 | Mol Cell | 2020 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/32155413 |
| The Integrator complex at the crossroad of coding and noncoding RNA. | Kirstein N, Gomes Dos Santos H, Blumenthal E, Shiekhattar R | Current opinion in cell biology | 33340967 | Curr Opin Cell Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33340967 |
| The Human Integrator Complex Facilitates Transcriptional Elongation by Endonucleolytic Cleavage of Nascent Transcripts. | Beckedorff F, Blumenthal E, daSilva LF, Aoi Y, Cingaram PR, Yue J, Zhang A, Dokaneheifard S, Valencia MG, Gaidosh G, Shilatifard A, Shiekhattar R | Cell reports | 32697989 | Cell Rep | 2020 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/32697989 |
| Targeted chemotherapy overcomes drug resistance in melanoma. | Yue J, Vendramin R, Liu F, Lopez O, Valencia MG, Gomes Dos Santos H, Gaidosh G, Beckedorff F, Blumenthal E, Speroni L, Nimer SD, Marine JC, Shiekhattar R | Genes & development | 32241802 | Genes Dev | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/32241802 |
| It's a DoG-eat-DoG world-altered transcriptional mechanisms drive downstream-of-gene (DoG) transcript production. | Morgan M, Shiekhattar R, Shilatifard A, Lauberth SM | Molecular cell | 35487209 | Mol Cell | 2022 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/35487209 |
| Reirradiation for Recurrent Glioblastoma: What We Know and What We Do Not. | Knisely JPS, Fine HA | Journal of clinical oncology : official journal of the American Society of Clinical Oncology | 36260825 | J Clin Oncol | 2023 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/36260825 |
| Pluripotent stem cell-derived epithelium misidentified as brain microvascular endothelium requires ETS factors to acquire vascular fate. | Lu TM, Houghton S, Magdeldin T, Durán JGB, Minotti AP, Snead A, Sproul A, Nguyen DT, Xiang J, Fine HA, Rosenwaks Z, Studer L, Rafii S, Agalliu D, Redmond D, Lis R | Proceedings of the National Academy of Sciences of the United States of America | 33542154 | Proc Natl Acad Sci U S A | 2021 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/33542154 |
| Detailed longitudinal sampling of glioma stem cells in situ reveals Chr7 gain and Chr10 loss as repeated events in primary tumor formation and recurrence. | Baysan M, Woolard K, Cam MC, Zhang W, Song H, Kotliarova S, Balamatsias D, Linkous A, Ahn S, Walling J, Belova GI, Fine HA | International journal of cancer | 28710771 | Int J Cancer | 2017 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/28710771 |
| Chronic hypoxia remodels the tumor microenvironment to support glioma stem cell growth. | Nicholson JG, Cirigliano S, Singhania R, Haywood C, Shahidi Dadras M, Yoshimura M, Vanderbilt D, Liechty B, Fine HA | Acta neuropathologica communications | 38528608 | Acta Neuropathol Commun | 2024 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/38528608 |
| Generating Patient-Derived Gliomas within Cerebral Organoids. | Linkous A, Fine HA | STAR protocols | 33103125 | STAR Protoc | 2020 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/33103125 |
| Tumor Microenvironment Is Critical for the Maintenance of Cellular States Found in Primary Glioblastomas. | Pine AR, Cirigliano SM, Nicholson JG, Hu Y, Linkous A, Miyaguchi K, Edwards L, Singhania R, Schwartz TH, Ramakrishna R, Pisapia DJ, Snuderl M, Elemento O, Fine HA | Cancer discovery | 32253265 | Cancer Discov | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32253265 |
| Modeling Patient-Derived Glioblastoma with Cerebral Organoids. | Linkous A, Balamatsias D, Snuderl M, Edwards L, Miyaguchi K, Milner T, Reich B, Cohen-Gould L, Storaska A, Nakayama Y, Schenkein E, Singhania R, Cirigliano S, Magdeldin T, Lin Y, Nanjangud G, Chadalavada K, Pisapia D, Liston C, Fine HA | Cell reports | 30893594 | Cell Rep | 2019 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/30893594 |
| Integrative Molecular Analysis of Patients With Advanced and Metastatic Cancer. | Sailer V, Eng KW, Zhang T, Bareja R, Pisapia DJ, Sigaras A, Bhinder B, Romanel A, Wilkes D, Sticca E, Cyrta J, Rao R, Sahota S, Pauli C, Beg S, Motanagh S, Kossai M, Fontunge J, Puca L, Rennert H, Zhaoying Xiang J, Greco N, Kim R, MacDonald TY, McNary T, Blattner-Johnson M, Schiffman MH, Faltas BM, Greenfield JP, Rickman D, Andreopoulou E, Holcomb K, Vahdat LT, Scherr DS, van Besien K, Barbieri CE, Robinson BD, Fine HA, Ocean AJ, Molina A, Shah MA, Nanus DM, Pan Q, Demichelis F, Tagawa ST, Song W, Mosquera JM, Sboner A, Rubin MA, Elemento O, Beltran H | JCO precision oncology | 31592503 | JCO Precis Oncol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31592503 |
| Diffuse Glioma Heterogeneity and Its Therapeutic Implications. | Nicholson JG, Fine HA | Cancer discovery | 33558264 | Cancer Discov | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33558264 |
| Malignant Gliomas: Simplifying the Complexity. | Fine HA | Cancer discovery | 31792122 | Cancer Discov | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31792122 |
| Microenvironment-Driven Dynamic Chromatin Changes in Glioblastoma Recapitulate Early Neural Development at Single-Cell Resolution. | Pine AR, Cirigliano SM, Singhania R, Nicholson J, da Silva B, Leslie CS, Fine HA | Cancer research | 36877162 | Cancer Res | 2023 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/36877162 |
| Nuclear condensates in YAP1-driven ependymoma. | Dadras MS, Fine HA | Nature cell biology | 36732630 | Nat Cell Biol | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36732630 |
| Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer. | Johnstone SE, Reyes A, Qi Y, Adriaens C, Hegazi E, Pelka K, Chen JH, Zou LS, Drier Y, Hecht V, Shoresh N, Selig MK, Lareau CA, Iyer S, Nguyen SC, Joyce EF, Hacohen N, Irizarry RA, Zhang B, Aryee MJ, Bernstein BE | Cell | 32841603 | Cell | 2020 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/32841603 |
| Altered chromosomal topology drives oncogenic programs in SDH-deficient GISTs. | Flavahan WA, Drier Y, Johnstone SE, Hemming ML, Tarjan DR, Hegazi E, Shareef SJ, Javed NM, Raut CP, Eschle BK, Gokhale PC, Hornick JL, Sicinska ET, Demetri GD, Bernstein BE | Nature | 31666694 | Nature | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31666694 |
| Epigenome editing strategies for the functional annotation of CTCF insulators. | Tarjan DR, Flavahan WA, Bernstein BE | Nature communications | 31534142 | Nat Commun | 2019 Sep 18 | https://www.ncbi.nlm.nih.gov/pubmed/31534142 |
| Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity. | van Galen P, Hovestadt V, Wadsworth Ii MH, Hughes TK, Griffin GK, Battaglia S, Verga JA, Stephansky J, Pastika TJ, Lombardi Story J, Pinkus GS, Pozdnyakova O, Galinsky I, Stone RM, Graubert TA, Shalek AK, Aster JC, Lane AA, Bernstein BE | Cell | 30827681 | Cell | 2019 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/30827681 |
| Integrative dissection of gene regulatory elements at base resolution. | Chen Z, Javed N, Moore M, Wu J, Sun G, Vinyard M, Collins A, Pinello L, Najm FJ, Bernstein BE | Cell genomics | 37388913 | Cell Genom | 2023 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/37388913 |
| Dissection of a CTCF topological boundary uncovers principles of enhancer-oncogene regulation. | Kim KL, Rahme GJ, Goel VY, El Farran CA, Hansen AS, Bernstein BE | Molecular cell | 38452764 | Mol Cell | 2024 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/38452764 |
| Insulator dysfunction and oncogene activation in IDH mutant gliomas. | Flavahan WA, Drier Y, Liau BB, Gillespie SM, Venteicher AS, Stemmer-Rachamimov AO, Suvà ML, Bernstein BE | Nature | 26700815 | Nature | 2016 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/26700815 |
| Epigenetic plasticity and the hallmarks of cancer. | Flavahan WA, Gaskell E, Bernstein BE | Science (New York, N.Y.) | 28729483 | Science | 2017 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/28729483 |
| Modeling epigenetic lesions that cause gliomas. | Rahme GJ, Javed NM, Puorro KL, Xin S, Hovestadt V, Johnstone SE, Bernstein BE | Cell | 37494934 | Cell | 2023 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/37494934 |
| Adaptive Chromatin Remodeling Drives Glioblastoma Stem Cell Plasticity and Drug Tolerance. | Liau BB, Sievers C, Donohue LK, Gillespie SM, Flavahan WA, Miller TE, Venteicher AS, Hebert CH, Carey CD, Rodig SJ, Shareef SJ, Najm FJ, van Galen P, Wakimoto H, Cahill DP, Rich JN, Aster JC, Suvà ML, Patel AP, Bernstein BE | Cell stem cell | 27989769 | Cell Stem Cell | 2017 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/27989769 |
| Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq. | Filbin MG, Tirosh I, Hovestadt V, Shaw ML, Escalante LE, Mathewson ND, Neftel C, Frank N, Pelton K, Hebert CM, Haberler C, Yizhak K, Gojo J, Egervari K, Mount C, van Galen P, Bonal DM, Nguyen QD, Beck A, Sinai C, Czech T, Dorfer C, Goumnerova L, Lavarino C, Carcaboso AM, Mora J, Mylvaganam R, Luo CC, Peyrl A, Popović M, Azizi A, Batchelor TT, Frosch MP, Martinez-Lage M, Kieran MW, Bandopadhayay P, Beroukhim R, Fritsch G, Getz G, Rozenblatt-Rosen O, Wucherpfennig KW, Louis DN, Monje M, Slavc I, Ligon KL, Golub TR, Regev A, Bernstein BE, Suvà ML | Science (New York, N.Y.) | 29674595 | Science | 2018 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/29674595 |
| Single-cell lineage analysis reveals genetic and epigenetic interplay in glioblastoma drug resistance. | Eyler CE, Matsunaga H, Hovestadt V, Vantine SJ, van Galen P, Bernstein BE | Genome biology | 32669109 | Genome Biol | 2020 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/32669109 |
| A B Cell Regulome Links Notch to Downstream Oncogenic Pathways in Small B Cell Lymphomas. | Ryan RJH, Petrovic J, Rausch DM, Zhou Y, Lareau CA, Kluk MJ, Christie AL, Lee WY, Tarjan DR, Guo B, Donohue LKH, Gillespie SM, Nardi V, Hochberg EP, Blacklow SC, Weinstock DM, Faryabi RB, Bernstein BE, Aster JC, Pear WS | Cell reports | 29045844 | Cell Rep | 2017 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/29045844 |
| Resolving medulloblastoma cellular architecture by single-cell genomics. | Hovestadt V, Smith KS, Bihannic L, Filbin MG, Shaw ML, Baumgartner A, DeWitt JC, Groves A, Mayr L, Weisman HR, Richman AR, Shore ME, Goumnerova L, Rosencrance C, Carter RA, Phoenix TN, Hadley JL, Tong Y, Houston J, Ashmun RA, DeCuypere M, Sharma T, Flasch D, Silkov A, Ligon KL, Pomeroy SL, Rivera MN, Rozenblatt-Rosen O, Rusert JM, Wechsler-Reya RJ, Li XN, Peyrl A, Gojo J, Kirchhofer D, Lötsch D, Czech T, Dorfer C, Haberler C, Geyeregger R, Halfmann A, Gawad C, Easton J, Pfister SM, Regev A, Gajjar A, Orr BA, Slavc I, Robinson GW, Bernstein BE, Suvà ML, Northcott PA | Nature | 31341285 | Nature | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31341285 |
| Impact of supraphysiologic MDM2 expression on chromatin networks and therapeutic responses in sarcoma. | Bevill SM, Casaní-Galdón S, El Farran CA, Cytrynbaum EG, Macias KA, Oldeman SE, Oliveira KJ, Moore MM, Hegazi E, Adriaens C, Najm FJ, Demetri GD, Cohen S, Mullen JT, Riggi N, Johnstone SE, Bernstein BE | Cell genomics | 37492096 | Cell Genom | 2023 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/37492096 |
| Programs, Origins, and Niches of Immunomodulatory Myeloid Cells in Gliomas. | Miller TE, El Farran CA, Couturier CP, Chen Z, D'Antonio JP, Verga J, Villanueva MA, Castro LNG, Tong YE, Saadi TA, Chiocca AN, Fischer DS, Heiland DH, Guerriero JL, Petrecca K, Suva ML, Shalek AK, Bernstein BE | bioRxiv : the preprint server for biology | 37961527 | bioRxiv | 2023 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/37961527 |
| Epigenetic silencing by SETDB1 suppresses tumour intrinsic immunogenicity. | Griffin GK, Wu J, Iracheta-Vellve A, Patti JC, Hsu J, Davis T, Dele-Oni D, Du PP, Halawi AG, Ishizuka JJ, Kim SY, Klaeger S, Knudsen NH, Miller BC, Nguyen TH, Olander KE, Papanastasiou M, Rachimi S, Robitschek EJ, Schneider EM, Yeary MD, Zimmer MD, Jaffe JD, Carr SA, Doench JG, Haining WN, Yates KB, Manguso RT, Bernstein BE | Nature | 33953401 | Nature | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/33953401 |
| Extended-representation bisulfite sequencing of gene regulatory elements in multiplexed samples and single cells. | Shareef SJ, Bevill SM, Raman AT, Aryee MJ, van Galen P, Hovestadt V, Bernstein BE | Nature biotechnology | 33958785 | Nat Biotechnol | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/33958785 |
| Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing. | Nuñez JK, Chen J, Pommier GC, Cogan JZ, Replogle JM, Adriaens C, Ramadoss GN, Shi Q, Hung KL, Samelson AJ, Pogson AN, Kim JYS, Chung A, Leonetti MD, Chang HY, Kampmann M, Bernstein BE, Hovestadt V, Gilbert LA, Weissman JS | Cell | 33838111 | Cell | 2021 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/33838111 |
| Long-range phasing of dynamic, tissue-specific and allele-specific regulatory elements. | Battaglia S, Dong K, Wu J, Chen Z, Najm FJ, Zhang Y, Moore MM, Hecht V, Shoresh N, Bernstein BE | Nature genetics | 36195755 | Nat Genet | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36195755 |
| Helicase-assisted continuous editing for programmable mutagenesis of endogenous genomes. | Chen XD, Chen Z, Wythes G, Zhang Y, Orr BC, Sun G, Chao YK, Navarro Torres A, Thao K, Vallurupalli M, Sun J, Borji M, Tkacik E, Chen H, Bernstein BE, Chen F | Science (New York, N.Y.) | 39388570 | Science | 2024 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/39388570 |
| Single-Cell Transcriptomic Analysis of Primary and Metastatic Tumor Ecosystems in Head and Neck Cancer. | Puram SV, Tirosh I, Parikh AS, Patel AP, Yizhak K, Gillespie S, Rodman C, Luo CL, Mroz EA, Emerick KS, Deschler DG, Varvares MA, Mylvaganam R, Rozenblatt-Rosen O, Rocco JW, Faquin WC, Lin DT, Regev A, Bernstein BE | Cell | 29198524 | Cell | 2017 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/29198524 |
| Orthologous CRISPR-Cas9 enzymes for combinatorial genetic screens. | Najm FJ, Strand C, Donovan KF, Hegde M, Sanson KR, Vaimberg EW, Sullender ME, Hartenian E, Kalani Z, Fusi N, Listgarten J, Younger ST, Bernstein BE, Root DE, Doench JG | Nature biotechnology | 29251726 | Nat Biotechnol | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29251726 |
| An Integrative Model of Cellular States, Plasticity, and Genetics for Glioblastoma. | Neftel C, Laffy J, Filbin MG, Hara T, Shore ME, Rahme GJ, Richman AR, Silverbush D, Shaw ML, Hebert CM, Dewitt J, Gritsch S, Perez EM, Gonzalez Castro LN, Lan X, Druck N, Rodman C, Dionne D, Kaplan A, Bertalan MS, Small J, Pelton K, Becker S, Bonal D, Nguyen QD, Servis RL, Fung JM, Mylvaganam R, Mayr L, Gojo J, Haberler C, Geyeregger R, Czech T, Slavc I, Nahed BV, Curry WT, Carter BS, Wakimoto H, Brastianos PK, Batchelor TT, Stemmer-Rachamimov A, Martinez-Lage M, Frosch MP, Stamenkovic I, Riggi N, Rheinbay E, Monje M, Rozenblatt-Rosen O, Cahill DP, Patel AP, Hunter T, Verma IM, Ligon KL, Louis DN, Regev A, Bernstein BE, Tirosh I, Suvà ML | Cell | 31327527 | Cell | 2019 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/31327527 |
| Parallel Single-Cell RNA-Seq and Genetic Recording Reveals Lineage Decisions in Developing Embryoid Bodies. | Kim IS, Wu J, Rahme GJ, Battaglia S, Dixit A, Gaskell E, Chen H, Pinello L, Bernstein BE | Cell reports | 33027665 | Cell Rep | 2020 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/33027665 |
| Chromatin complex dependencies reveal targeting opportunities in leukemia. | Najm FJ, DeWeirdt P, Moore MM, Bevill SM, El Farran CA, Macias KA, Hegde M, Waterbury AL, Liau BB, van Galen P, Doench JG, Bernstein BE | Nature communications | 36707513 | Nat Commun | 2023 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/36707513 |
| Programs, origins and immunomodulatory functions of myeloid cells in glioma. | Miller TE, El Farran CA, Couturier CP, Chen Z, D'Antonio JP, Verga J, Villanueva MA, Gonzalez Castro LN, Tong YE, Saadi TA, Chiocca AN, Zhang Y, Fischer DS, Heiland DH, Guerriero JL, Petrecca K, Suva ML, Shalek AK, Bernstein BE | Nature | 40011771 | Nature | 2025 Apr | https://www.ncbi.nlm.nih.gov/pubmed/40011771 |
| A molecular signature for anastasis, recovery from the brink of apoptotic cell death. | Sun G, Guzman E, Balasanyan V, Conner CM, Wong K, Zhou HR, Kosik KS, Montell DJ | The Journal of cell biology | 28768686 | J Cell Biol | 2017 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/28768686 |
| Akt1 and dCIZ1 promote cell survival from apoptotic caspase activation during regeneration and oncogenic overgrowth. | Sun G, Ding XA, Argaw Y, Guo X, Montell DJ | Nature communications | 33184261 | Nat Commun | 2020 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/33184261 |
| Q&A: Cellular near death experiences-what is anastasis? | Sun G, Montell DJ | BMC biology | 29065871 | BMC Biol | 2017 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/29065871 |
| Unconventional Ways to Live and Die: Cell Death and Survival in Development, Homeostasis, and Disease. | Gudipaty SA, Conner CM, Rosenblatt J, Montell DJ | Annual review of cell and developmental biology | 30089222 | Annu Rev Cell Dev Biol | 2018 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/30089222 |
| Olfactory sensory neurons transiently express multiple olfactory receptors during development. | Tan L, Li Q, Xie XS | Molecular systems biology | 26646940 | Mol Syst Biol | 2015 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/26646940 |
| Single cell genomics to study DNA and chromosome changes in human gametes and embryos. | Blanshard RC, Chen C, Xie XS, Hoffmann ER | Methods in cell biology | 29804682 | Methods Cell Biol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29804682 |
| Correlated gene modules uncovered by high-precision single-cell transcriptomics. | Chapman AR, Lee DF, Cai W, Ma W, Li X, Sun W, Xie XS | Proceedings of the National Academy of Sciences of the United States of America | 36508663 | Proc Natl Acad Sci U S A | 2022 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/36508663 |
| Single cell transcriptome amplification with MALBAC. | Chapman AR, He Z, Lu S, Yong J, Tan L, Tang F, Xie XS | PloS one | 25822772 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25822772 |
| Single-Cell Whole-Genome Amplification and Sequencing: Methodology and Applications. | Huang L, Ma F, Chapman A, Lu S, Xie XS | Annual review of genomics and human genetics | 26077818 | Annu Rev Genomics Hum Genet | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26077818 |
| Single molecules meet genomics: pinpointing precision medicine. | Xie XS | JAMA | 25974149 | JAMA | 2015 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/25974149 |
| Single-cell whole-genome analyses by Linear Amplification via Transposon Insertion (LIANTI). | Chen C, Xing D, Tan L, Li H, Zhou G, Huang L, Xie XS | Science (New York, N.Y.) | 28408603 | Science | 2017 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/28408603 |
| Coordination of two enhancers drives expression of olfactory trace amine-associated receptors. | Fei A, Wu W, Tan L, Tang C, Xu Z, Huo X, Bao H, Kong Y, Johnson M, Hartmann G, Talay M, Yang C, Riegler C, Herrera KJ, Engert F, Xie XS, Barnea G, Liberles SD, Yang H, Li Q | Nature communications | 34145235 | Nat Commun | 2021 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/34145235 |
| Three-dimensional genome structures of single diploid human cells. | Tan L, Xing D, Chang CH, Li H, Xie XS | Science (New York, N.Y.) | 30166492 | Science | 2018 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/30166492 |
| A Near-Complete Spatial Map of Olfactory Receptors in the Mouse Main Olfactory Epithelium. | Tan L, Xie XS | Chemical senses | 29796642 | Chem Senses | 2018 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/29796642 |
| Discovery of a Potent GLUT Inhibitor from a Library of Rapafucins by Using 3D Microarrays. | Guo Z, Cheng Z, Wang J, Liu W, Peng H, Wang Y, Rao AVS, Li RJ, Ying X, Korangath P, Liberti MV, Li Y, Xie Y, Hong SY, Schiene-Fischer C, Fischer G, Locasale JW, Sukumar S, Zhu H, Liu JO | Angewandte Chemie (International ed. in English) | 31591797 | Angew Chem Int Ed Engl | 2019 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/31591797 |
| Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. | Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL | Genes & development | 21890647 | Genes Dev | 2011 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/21890647 |
| Systematic discovery of TLR signaling components delineates viral-sensing circuits. | Chevrier N, Mertins P, Artyomov MN, Shalek AK, Iannacone M, Ciaccio MF, Gat-Viks I, Tonti E, DeGrace MM, Clauser KR, Garber M, Eisenhaure TM, Yosef N, Robinson J, Sutton A, Andersen MS, Root DE, von Andrian U, Jones RB, Park H, Carr SA, Regev A, Amit I, Hacohen N | Cell | 22078882 | Cell | 2011 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/22078882 |
| Combinatorial patterning of chromatin regulators uncovered by genome-wide location analysis in human cells. | Ram O, Goren A, Amit I, Shoresh N, Yosef N, Ernst J, Kellis M, Gymrek M, Issner R, Coyne M, Durham T, Zhang X, Donaghey J, Epstein CB, Regev A, Bernstein BE | Cell | 22196736 | Cell | 2011 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/22196736 |
| MetaMerge: scaling up genome-scale metabolic reconstructions with application to Mycobacterium tuberculosis. | Chindelevitch L, Stanley S, Hung D, Regev A, Berger B | Genome biology | 22292986 | Genome Biol | 2012 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/22292986 |
| Correction: Evolutionary principles of modular gene regulation in yeasts. | Thompson DA, Roy S, Chan M, Styczynski MP, Pfiffner J, French C, Socha A, Thielke A, Napolitano S, Muller P, Kellis M, Konieczka JH, Wapinski I, Regev A | eLife | 23840936 | Elife | 2013 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/23840936 |
| Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli. | Gat-Viks I, Chevrier N, Wilentzik R, Eisenhaure T, Raychowdhury R, Steuerman Y, Shalek AK, Hacohen N, Amit I, Regev A | Nature biotechnology | 23503680 | Nat Biotechnol | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23503680 |
| CD39 and CD161 modulate Th17 responses in Crohn's disease. | Bai A, Moss A, Kokkotou E, Usheva A, Sun X, Cheifetz A, Zheng Y, Longhi MS, Gao W, Wu Y, Robson SC | Journal of immunology (Baltimore, Md. : 1950) | 25172498 | J Immunol | 2014 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/25172498 |
| Early-branching gut fungi possess a large, comprehensive array of biomass-degrading enzymes. | Solomon KV, Haitjema CH, Henske JK, Gilmore SP, Borges-Rivera D, Lipzen A, Brewer HM, Purvine SO, Wright AT, Theodorou MK, Grigoriev IV, Regev A, Thompson DA, O'Malley MA | Science (New York, N.Y.) | 26912365 | Science | 2016 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/26912365 |
| High-resolution mapping reveals a conserved, widespread, dynamic mRNA methylation program in yeast meiosis. | Schwartz S, Agarwala SD, Mumbach MR, Jovanovic M, Mertins P, Shishkin A, Tabach Y, Mikkelsen TS, Satija R, Ruvkun G, Carr SA, Lander ES, Fink GR, Regev A | Cell | 24269006 | Cell | 2013 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/24269006 |
| A functional selection model explains evolutionary robustness despite plasticity in regulatory networks. | Habib N, Wapinski I, Margalit H, Regev A, Friedman N | Molecular systems biology | 23089682 | Mol Syst Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23089682 |
| Inflammatory signaling in human tuberculosis granulomas is spatially organized. | Marakalala MJ, Raju RM, Sharma K, Zhang YJ, Eugenin EA, Prideaux B, Daudelin IB, Chen PY, Booty MG, Kim JH, Eum SY, Via LE, Behar SM, Barry CE 3rd, Mann M, Dartois V, Rubin EJ | Nature medicine | 27043495 | Nat Med | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27043495 |
| Arboretum: reconstruction and analysis of the evolutionary history of condition-specific transcriptional modules. | Roy S, Wapinski I, Pfiffner J, French C, Socha A, Konieczka J, Habib N, Kellis M, Thompson D, Regev A | Genome research | 23640720 | Genome Res | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23640720 |
| Evolutionary divergence of intrinsic and trans-regulated nucleosome positioning sequences reveals plastic rules for chromatin organization. | Tsankov A, Yanagisawa Y, Rhind N, Regev A, Rando OJ | Genome research | 21914852 | Genome Res | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21914852 |
| Strategies to discover regulatory circuits of the mammalian immune system. | Amit I, Regev A, Hacohen N | Nature reviews. Immunology | 22094988 | Nat Rev Immunol | 2011 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/22094988 |
| The evolution of drug resistance in clinical isolates of Candida albicans. | Ford CB, Funt JM, Abbey D, Issi L, Guiducci C, Martinez DA, Delorey T, Li BY, White TC, Cuomo C, Rao RP, Berman J, Thompson DA, Regev A | eLife | 25646566 | Elife | 2015 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/25646566 |
| Efficient delivery of nuclease proteins for genome editing in human stem cells and primary cells. | Liu J, Gaj T, Yang Y, Wang N, Shui S, Kim S, Kanchiswamy CN, Kim JS, Barbas CF 3rd | Nature protocols | 26492140 | Nat Protoc | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26492140 |
| Rapid, stable, chemoselective labeling of thiols with Julia-Kocieński-like reagents: a serum-stable alternative to maleimide-based protein conjugation. | Toda N, Asano S, Barbas CF 3rd | Angewandte Chemie (International ed. in English) | 24123851 | Angew Chem Int Ed Engl | 2013 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/24123851 |
| Synthetic zinc finger proteins: the advent of targeted gene regulation and genome modification technologies. | Gersbach CA, Gaj T, Barbas CF 3rd | Accounts of chemical research | 24877793 | Acc Chem Res | 2014 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/24877793 |
| Protein delivery using Cys2-His2 zinc-finger domains. | Gaj T, Liu J, Anderson KE, Sirk SJ, Barbas CF 3rd | ACS chemical biology | 24936957 | ACS Chem Biol | 2014 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/24936957 |
| Improving the serum stability of site-specific antibody conjugates with sulfone linkers. | Patterson JT, Asano S, Li X, Rader C, Barbas CF 3rd | Bioconjugate chemistry | 25099687 | Bioconjug Chem | 2014 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/25099687 |
| Human Serum Albumin Domain I Fusion Protein for Antibody Conjugation. | Patterson JT, Wilson HD, Asano S, Nilchan N, Fuller RP, Roush WR, Rader C, Barbas CF 3rd | Bioconjugate chemistry | 27666414 | Bioconjug Chem | 2016 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/27666414 |
| Chimeric TALE recombinases with programmable DNA sequence specificity. | Mercer AC, Gaj T, Fuller RP, Barbas CF 3rd | Nucleic acids research | 23019222 | Nucleic Acids Res | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23019222 |
| Redesigning Recombinase Specificity for Safe Harbor Sites in the Human Genome. | Wallen MC, Gaj T, Barbas CF 3rd | PloS one | 26414179 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26414179 |
| Reactivation of Latent HIV-1 Expression by Engineered TALE Transcription Factors. | Perdigão P, Gaj T, Santa-Marta M, Barbas CF 3rd, Goncalves J | PloS one | 26933881 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26933881 |
| Improved cell-penetrating zinc-finger nuclease proteins for precision genome engineering. | Liu J, Gaj T, Wallen MC, Barbas CF 3rd | Molecular therapy. Nucleic acids | 25756962 | Mol Ther Nucleic Acids | 2015 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/25756962 |
| Genome engineering with custom recombinases. | Gaj T, Barbas CF 3rd | Methods in enzymology | 25398336 | Methods Enzymol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25398336 |
| Enhancing the specificity of recombinase-mediated genome engineering through dimer interface redesign. | Gaj T, Sirk SJ, Tingle RD, Mercer AC, Wallen MC, Barbas CF 3rd | Journal of the American Chemical Society | 24611715 | J Am Chem Soc | 2014 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/24611715 |
| A chemically programmed antibody is a long-lasting and potent inhibitor of influenza neuraminidase. | Hayakawa M, Toda N, Carrillo N, Thornburg NJ, Crowe JE Jr, Barbas CF 3rd | Chembiochem : a European journal of chemical biology | 22965667 | Chembiochem | 2012 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/22965667 |
| Facile and stabile linkages through tyrosine: bioconjugation strategies with the tyrosine-click reaction. | Ban H, Nagano M, Gavrilyuk J, Hakamata W, Inokuma T, Barbas CF 3rd | Bioconjugate chemistry | 23534985 | Bioconjug Chem | 2013 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/23534985 |
| Expanding the scope of site-specific recombinases for genetic and metabolic engineering. | Gaj T, Sirk SJ, Barbas CF 3rd | Biotechnology and bioengineering | 23982993 | Biotechnol Bioeng | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23982993 |
| In vivo programming of endogenous antibodies via oral administration of adaptor ligands. | Nagano M, Carrillo N, Otsubo N, Hakamata W, Ban H, Fuller RP, Bashiruddin NK, Barbas CF 3rd | Bioorganic & medicinal chemistry | 28988625 | Bioorg Med Chem | 2017 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/28988625 |
| Expanding the zinc-finger recombinase repertoire: directed evolution and mutational analysis of serine recombinase specificity determinants. | Sirk SJ, Gaj T, Jonsson A, Mercer AC, Barbas CF 3rd | Nucleic acids research | 24452803 | Nucleic Acids Res | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24452803 |
| ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering. | Gaj T, Gersbach CA, Barbas CF 3rd | Trends in biotechnology | 23664777 | Trends Biotechnol | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23664777 |
| A comprehensive approach to zinc-finger recombinase customization enables genomic targeting in human cells. | Gaj T, Mercer AC, Sirk SJ, Smith HL, Barbas CF 3rd | Nucleic acids research | 23393187 | Nucleic Acids Res | 2013 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/23393187 |
| Protein Delivery of Cell-Penetrating Zinc-Finger Activators Stimulates Latent HIV-1-Infected Cells. | Perdigão PRL, Cunha-Santos C, Barbas CF 3rd, Santa-Marta M, Goncalves J | Molecular therapy. Methods & clinical development | 32637446 | Mol Ther Methods Clin Dev | 2020 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/32637446 |
| Direct protein delivery to mammalian cells using cell-permeable Cys2-His2 zinc-finger domains. | Gaj T, Liu J | Journal of visualized experiments : JoVE | 25866937 | J Vis Exp | 2015 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/25866937 |
| N-Sulfonyl-β-lactam hapten as an effective labeling reagent for aldolase mAb. | Inokuma T, Fuller RP, Barbas CF 3rd | Bioorganic & medicinal chemistry letters | 25791455 | Bioorg Med Chem Lett | 2015 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/25791455 |
| Directed evolution of the TALE N-terminal domain for recognition of all 5' bases. | Lamb BM, Mercer AC, Barbas CF 3rd | Nucleic acids research | 23980031 | Nucleic Acids Res | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23980031 |
| Regulation of endogenous human gene expression by ligand-inducible TALE transcription factors. | Mercer AC, Gaj T, Sirk SJ, Lamb BM, Barbas CF 3rd | ACS synthetic biology | 24251925 | ACS Synth Biol | 2014 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/24251925 |
| Cell-penetrating peptide-mediated delivery of TALEN proteins via bioconjugation for genome engineering. | Liu J, Gaj T, Patterson JT, Sirk SJ, Barbas CF 3rd | PloS one | 24465685 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24465685 |
| Delivery of multiple siRNAs using lipid-coated PLGA nanoparticles for treatment of prostate cancer. | Hasan W, Chu K, Gullapalli A, Dunn SS, Enlow EM, Luft JC, Tian S, Napier ME, Pohlhaus PD, Rolland JP, DeSimone JM | Nano letters | 22165988 | Nano Lett | 2012 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/22165988 |
| Silylated precision particles for controlled release of proteins. | Khodabandehlou K, Kumbhar AS, Habibi S, Pandya AA, Luft JC, Khan SA, DeSimone JM | ACS applied materials & interfaces | 25742193 | ACS Appl Mater Interfaces | 2015 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/25742193 |
| Rapid and Persistent Delivery of Antigen by Lymph Node Targeting PRINT Nanoparticle Vaccine Carrier To Promote Humoral Immunity. | Mueller SN, Tian S, DeSimone JM | Molecular pharmaceutics | 25817072 | Mol Pharm | 2015 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/25817072 |
| Incorporation and controlled release of silyl ether prodrugs from PRINT nanoparticles. | Parrott MC, Finniss M, Luft JC, Pandya A, Gullapalli A, Napier ME, DeSimone JM | Journal of the American Chemical Society | 22545784 | J Am Chem Soc | 2012 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/22545784 |
| The effect of particle size on the biodistribution of low-modulus hydrogel PRINT particles. | Merkel TJ, Chen K, Jones SW, Pandya AA, Tian S, Napier ME, Zamboni WE, DeSimone JM | Journal of controlled release : official journal of the Controlled Release Society | 22705460 | J Control Release | 2012 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/22705460 |
| Analysis of the murine immune response to pulmonary delivery of precisely fabricated nano- and microscale particles. | Roberts RA, Shen T, Allen IC, Hasan W, DeSimone JM, Ting JP | PloS one | 23593509 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23593509 |
| Particles for Local Delivery of Proteins Using Intra-Articular Route. | Khodabandehlou K, Tian S, Luft JC, Khan SA, DeSimone JM | Advanced healthcare materials | 26833828 | Adv Healthc Mater | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26833828 |
| Reductively Responsive Hydrogel Nanoparticles with Uniform Size, Shape, and Tunable Composition for Systemic siRNA Delivery in Vivo. | Ma D, Tian S, Baryza J, Luft JC, DeSimone JM | Molecular pharmaceutics | 26287725 | Mol Pharm | 2015 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/26287725 |
| Towards programming immune tolerance through geometric manipulation of phosphatidylserine. | Roberts RA, Eitas TK, Byrne JD, Johnson BM, Short PJ, McKinnon KP, Reisdorf S, Luft JC, DeSimone JM, Ting JP | Biomaterials | 26325217 | Biomaterials | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26325217 |
| Analysis of human innate immune responses to PRINT fabricated nanoparticles with cross validation using a humanized mouse model. | Robbins GR, Roberts RA, Guo H, Reuter K, Shen T, Sempowski GD, McKinnon KP, Su L, DeSimone JM, Ting JP | Nanomedicine : nanotechnology, biology, and medicine | 25596079 | Nanomedicine | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25596079 |
| What limits the efficiency of double-strand break-dependent stress-induced mutation in Escherichia coli? | Shee C, Ponder R, Gibson JL, Rosenberg SM | Journal of molecular microbiology and biotechnology | 22248539 | J Mol Microbiol Biotechnol | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22248539 |
| Gross chromosomal rearrangement mediated by DNA replication in stressed cells: evidence from Escherichia coli. | Moore JM, Wimberly H, Thornton PC, Rosenberg SM, Hastings PJ | Annals of the New York Academy of Sciences | 22954223 | Ann N Y Acad Sci | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22954223 |
| Two mechanisms produce mutation hotspots at DNA breaks in Escherichia coli. | Shee C, Gibson JL, Rosenberg SM | Cell reports | 23041320 | Cell Rep | 2012 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/23041320 |
| Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways. | Klein HL, Bačinskaja G, Che J, Cheblal A, Elango R, Epshtein A, Fitzgerald DM, Gómez-González B, Khan SR, Kumar S, Leland BA, Marie L, Mei Q, Miné-Hattab J, Piotrowska A, Polleys EJ, Putnam CD, Radchenko EA, Saada AA, Sakofsky CJ, Shim EY, Stracy M, Xia J, Yan Z, Yin Y, Aguilera A, Argueso JL, Freudenreich CH, Gasser SM, Gordenin DA, Haber JE, Ira G, Jinks-Robertson S, King MC, Kolodner RD, Kuzminov A, Lambert SA, Lee SE, Miller KM, Mirkin SM, Petes TD, Rosenberg SM, Rothstein R, Symington LS, Zawadzki P, Kim N, Lisby M, Malkova A | Microbial cell (Graz, Austria) | 30652105 | Microb Cell | 2019 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/30652105 |
| MioC and GidA proteins promote cell division in E. coli. | Lies M, Visser BJ, Joshi MC, Magnan D, Bates D | Frontiers in microbiology | 26074904 | Front Microbiol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26074904 |
| ppGpp and RNA-polymerase backtracking guide antibiotic-induced mutable gambler cells. | Zhai Y, Minnick PJ, Pribis JP, Garcia-Villada L, Hastings PJ, Herman C, Rosenberg SM | Molecular cell | 36965481 | Mol Cell | 2023 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/36965481 |
| Molecular imaging: exploring the next frontier. | Weissleder R | Radiology | 10478223 | Radiology | 1999 Sep | https://www.ncbi.nlm.nih.gov/pubmed/10478223 |
| Engineered proteins detect spontaneous DNA breakage in human and bacterial cells. | Shee C, Cox BD, Gu F, Luengas EM, Joshi MC, Chiu LY, Magnan D, Halliday JA, Frisch RL, Gibson JL, Nehring RB, Do HG, Hernandez M, Li L, Herman C, Hastings PJ, Bates D, Harris RS, Miller KM, Rosenberg SM | eLife | 24171103 | Elife | 2013 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/24171103 |
| An ultra-dense library resource for rapid deconvolution of mutations that cause phenotypes in Escherichia coli. | Nehring RB, Gu F, Lin HY, Gibson JL, Blythe MJ, Wilson R, Bravo Núñez MA, Hastings PJ, Louis EJ, Frisch RL, Hu JC, Rosenberg SM | Nucleic acids research | 26578563 | Nucleic Acids Res | 2016 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/26578563 |
| Bacteria-to-Human Protein Networks Reveal Origins of Endogenous DNA Damage. | Xia J, Chiu LY, Nehring RB, Bravo Núñez MA, Mei Q, Perez M, Zhai Y, Fitzgerald DM, Pribis JP, Wang Y, Hu CW, Powell RT, LaBonte SA, Jalali A, Matadamas Guzmán ML, Lentzsch AM, Szafran AT, Joshi MC, Richters M, Gibson JL, Frisch RL, Hastings PJ, Bates D, Queitsch C, Hilsenbeck SG, Coarfa C, Hu JC, Siegele DA, Scott KL, Liang H, Mancini MA, Herman C, Miller KM, Rosenberg SM | Cell | 30633903 | Cell | 2019 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/30633903 |
| Rare deleterious germline variants and risk of lung cancer. | Liu Y, Xia J, McKay J, Tsavachidis S, Xiao X, Spitz MR, Cheng C, Byun J, Hong W, Li Y, Zhu D, Song Z, Rosenberg SM, Scheurer ME, Kheradmand F, Pikielny CW, Lusk CM, Schwartz AG, Wistuba II, Cho MH, Silverman EK, Bailey-Wilson J, Pinney SM, Anderson M, Kupert E, Gaba C, Mandal D, You M, de Andrade M, Yang P, Liloglou T, Davies MPA, Lissowska J, Swiatkowska B, Zaridze D, Mukeria A, Janout V, Holcatova I, Mates D, Stojsic J, Scelo G, Brennan P, Liu G, Field JK, Hung RJ, Christiani DC, Amos CI | NPJ precision oncology | 33594163 | NPJ Precis Oncol | 2021 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/33594163 |
| Tools To Live By: Bacterial DNA Structures Illuminate Cancer. | Xia J, Mei Q, Rosenberg SM | Trends in genetics : TIG | 30962000 | Trends Genet | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30962000 |
| Stress-induced loss of heterozygosity in Candida: a possible missing link in the ability to evolve. | Rosenberg SM | mBio | 21933916 | mBio | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21933916 |
| R-loops and nicks initiate DNA breakage and genome instability in non-growing Escherichia coli. | Wimberly H, Shee C, Thornton PC, Sivaramakrishnan P, Rosenberg SM, Hastings PJ | Nature communications | 23828459 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23828459 |
| Holliday junction trap shows how cells use recombination and a junction-guardian role of RecQ helicase. | Xia J, Chen LT, Mei Q, Ma CH, Halliday JA, Lin HY, Magnan D, Pribis JP, Fitzgerald DM, Hamilton HM, Richters M, Nehring RB, Shen X, Li L, Bates D, Hastings PJ, Herman C, Jayaram M, Rosenberg SM | Science advances | 28090586 | Sci Adv | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28090586 |
| Impact of a stress-inducible switch to mutagenic repair of DNA breaks on mutation in Escherichia coli. | Shee C, Gibson JL, Darrow MC, Gonzalez C, Rosenberg SM | Proceedings of the National Academy of Sciences of the United States of America | 21808005 | Proc Natl Acad Sci U S A | 2011 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/21808005 |
| Transcriptome-wide association study reveals candidate causal genes for lung cancer. | Bossé Y, Li Z, Xia J, Manem V, Carreras-Torres R, Gabriel A, Gaudreault N, Albanes D, Aldrich MC, Andrew A, Arnold S, Bickeböller H, Bojesen SE, Brennan P, Brunnstrom H, Caporaso N, Chen C, Christiani DC, Field JK, Goodman G, Grankvist K, Houlston R, Johansson M, Johansson M, Kiemeney LA, Lam S, Landi MT, Lazarus P, Le Marchand L, Liu G, Melander O, Rennert G, Risch A, Rosenberg SM, Schabath MB, Shete S, Song Z, Stevens VL, Tardon A, Wichmann HE, Woll P, Zienolddiny S, Obeidat M, Timens W, Hung RJ, Joubert P, Amos CI, McKay JD | International journal of cancer | 31696517 | Int J Cancer | 2020 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/31696517 |
| Medicine. Combating evolution to fight disease. | Rosenberg SM, Queitsch C | Science (New York, N.Y.) | 24604189 | Science | 2014 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/24604189 |
| Two mechanisms of chromosome fragility at replication-termination sites in bacteria. | Mei Q, Fitzgerald DM, Liu J, Xia J, Pribis JP, Zhai Y, Nehring RB, Paiano J, Li H, Nussenzweig A, Hastings PJ, Rosenberg SM | Science advances | 34144978 | Sci Adv | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34144978 |
| Genomic rearrangement in three dimensions. | Hastings PJ, Rosenberg SM | Nature biotechnology | 22158363 | Nat Biotechnol | 2011 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/22158363 |
| Identity and function of a large gene network underlying mutagenic repair of DNA breaks. | Al Mamun AA, Lombardo MJ, Shee C, Lisewski AM, Gonzalez C, Lin D, Nehring RB, Saint-Ruf C, Gibson JL, Frisch RL, Lichtarge O, Hastings PJ, Rosenberg SM | Science (New York, N.Y.) | 23224554 | Science | 2012 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/23224554 |
| The transcription fidelity factor GreA impedes DNA break repair. | Sivaramakrishnan P, Sepúlveda LA, Halliday JA, Liu J, Núñez MAB, Golding I, Rosenberg SM, Herman C | Nature | 28976965 | Nature | 2017 Oct 12 | https://www.ncbi.nlm.nih.gov/pubmed/28976965 |
| DNA Replication Initiation Is Blocked by a Distant Chromosome-Membrane Attachment. | Magnan D, Joshi MC, Barker AK, Visser BJ, Bates D | Current biology : CB | 26255849 | Curr Biol | 2015 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/26255849 |
| RefSOFI for Mapping Nanoscale Organization of Protein-Protein Interactions in Living Cells. | Hertel F, Mo GC, Duwé S, Dedecker P, Zhang J | Cell reports | 26748717 | Cell Rep | 2016 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/26748717 |
| Dynamic visualization of calcium-dependent signaling in cellular microdomains. | Mehta S, Zhang J | Cell calcium | 25703691 | Cell Calcium | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25703691 |
| Controlling enzymatic action in living cells with a kinase-inducible bimolecular switch. | Sample V, Ni Q, Mehta S, Inoue T, Zhang J | ACS chemical biology | 23072367 | ACS Chem Biol | 2013 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/23072367 |
| Using a kinase-inducible bimolecular switch to control enzyme activity in living cells. | Mehta S, Zhang J | Current protocols in chemical biology | 24391085 | Curr Protoc Chem Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24391085 |
| Confinement Sensing and Signal Optimization via Piezo1/PKA and Myosin II Pathways. | Hung WC, Yang JR, Yankaskas CL, Wong BS, Wu PH, Pardo-Pastor C, Serra SA, Chiang MJ, Gu Z, Wirtz D, Valverde MA, Yang JT, Zhang J, Konstantopoulos K | Cell reports | 27160899 | Cell Rep | 2016 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/27160899 |
| Tracking the Activity of mTORC1 in Living Cells Using Genetically Encoded FRET-based Biosensor TORCAR. | Zhou X, Li S, Zhang J | Current protocols in chemical biology | 27925667 | Curr Protoc Chem Biol | 2016 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/27925667 |
| Multiplexed visualization of dynamic signaling networks using genetically encoded fluorescent protein-based biosensors. | Depry C, Mehta S, Zhang J | Pflugers Archiv : European journal of physiology | 23138230 | Pflugers Arch | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23138230 |
| Single-cell analysis of G-protein signal transduction. | Clister T, Mehta S, Zhang J | The Journal of biological chemistry | 25605723 | J Biol Chem | 2015 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/25605723 |
| Systematic Prediction of Scaffold Proteins Reveals New Design Principles in Scaffold-Mediated Signal Transduction. | Hu J, Neiswinger J, Zhang J, Zhu H, Qian J | PLoS computational biology | 26393507 | PLoS Comput Biol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26393507 |
| Construction of human activity-based phosphorylation networks. | Newman RH, Hu J, Rho HS, Xie Z, Woodard C, Neiswinger J, Cooper C, Shirley M, Clark HM, Hu S, Hwang W, Jeong JS, Wu G, Lin J, Gao X, Ni Q, Goel R, Xia S, Ji H, Dalby KN, Birnbaum MJ, Cole PA, Knapp S, Ryazanov AG, Zack DJ, Blackshaw S, Pawson T, Gingras AC, Desiderio S, Pandey A, Turk BE, Zhang J, Zhu H, Qian J | Molecular systems biology | 23549483 | Mol Syst Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23549483 |
| Calmodulin-controlled spatial decoding of oscillatory Ca2+ signals by calcineurin. | Mehta S, Aye-Han NN, Ganesan A, Oldach L, Gorshkov K, Zhang J | eLife | 25056880 | Elife | 2014 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/25056880 |
| Transcriptional silencing by single-stranded RNAs targeting a noncoding RNA that overlaps a gene promoter. | Matsui M, Prakash TP, Corey DR | ACS chemical biology | 23082936 | ACS Chem Biol | 2013 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/23082936 |
| Visualization of Compartmentalized Kinase Activity Dynamics Using Adaptable BimKARs. | Depry C, Mehta S, Li R, Zhang J | Chemistry & biology | 26548610 | Chem Biol | 2015 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/26548610 |
| Genetically encoded molecular probes to visualize and perturb signaling dynamics in living biological systems. | Sample V, Mehta S, Zhang J | Journal of cell science | 24634506 | J Cell Sci | 2014 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/24634506 |
| Monitoring of post-translational modification dynamics with genetically encoded fluorescent reporters. | Hertel F, Zhang J | Biopolymers | 23576192 | Biopolymers | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23576192 |
| Genetically Encoded Fluorescent Biosensors Illuminate the Spatiotemporal Regulation of Signaling Networks. | Greenwald EC, Mehta S, Zhang J | Chemical reviews | 30550275 | Chem Rev | 2018 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/30550275 |
| Genetically encoded biosensors for visualizing live-cell biochemical activity at super-resolution. | Mo GC, Ross B, Hertel F, Manna P, Yang X, Greenwald E, Booth C, Plummer AM, Tenner B, Chen Z, Wang Y, Kennedy EJ, Cole PA, Fleming KG, Palmer A, Jimenez R, Xiao J, Dedecker P, Zhang J | Nature methods | 28288122 | Nat Methods | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28288122 |
| Dynamic Visualization of mTORC1 Activity in Living Cells. | Zhou X, Clister TL, Lowry PR, Seldin MM, Wong GW, Zhang J | Cell reports | 25772363 | Cell Rep | 2015 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/25772363 |
| Compartmentalized AMPK signaling illuminated by genetically encoded molecular sensors and actuators. | Miyamoto T, Rho E, Sample V, Akano H, Magari M, Ueno T, Gorshkov K, Chen M, Tokumitsu H, Zhang J, Inoue T | Cell reports | 25892241 | Cell Rep | 2015 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/25892241 |
| PhosphoNetworks: a database for human phosphorylation networks. | Hu J, Rho HS, Newman RH, Zhang J, Zhu H, Qian J | Bioinformatics (Oxford, England) | 24227675 | Bioinformatics | 2014 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/24227675 |
| Ratiometric biosensors based on dimerization-dependent fluorescent protein exchange. | Ding Y, Li J, Enterina JR, Shen Y, Zhang I, Tewson PH, Mo GC, Zhang J, Quinn AM, Hughes TE, Maysinger D, Alford SC, Zhang Y, Campbell RE | Nature methods | 25622108 | Nat Methods | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25622108 |
| CD98-Mediated Adhesive Signaling Enables the Establishment and Propagation of Acute Myelogenous Leukemia. | Bajaj J, Konuma T, Lytle NK, Kwon HY, Ablack JN, Cantor JM, Rizzieri D, Chuah C, Oehler VG, Broome EH, Ball ED, van der Horst EH, Ginsberg MH, Reya T | Cancer cell | 27908736 | Cancer Cell | 2016 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/27908736 |
| A stem cell reporter based platform to identify and target drug resistant stem cells in myeloid leukemia. | Spinler K, Bajaj J, Ito T, Zimdahl B, Hamilton M, Ahmadi A, Koechlein CS, Lytle N, Kwon HY, Anower-E-Khuda F, Sun H, Blevins A, Weeks J, Kritzik M, Karlseder J, Ginsberg MH, Park PW, Esko JD, Reya T | Nature communications | 33243988 | Nat Commun | 2020 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/33243988 |
| Engineering a BCR-ABL-activated caspase for the selective elimination of leukemic cells. | Kurokawa M, Ito T, Yang CS, Zhao C, Macintyre AN, Rizzieri DA, Rathmell JC, Deininger MW, Reya T, Kornbluth S | Proceedings of the National Academy of Sciences of the United States of America | 23324740 | Proc Natl Acad Sci U S A | 2013 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/23324740 |
| Image-based detection and targeting of therapy resistance in pancreatic adenocarcinoma. | Fox RG, Lytle NK, Jaquish DV, Park FD, Ito T, Bajaj J, Koechlein CS, Zimdahl B, Yano M, Kopp J, Kritzik M, Sicklick J, Sander M, Grandgenett PM, Hollingsworth MA, Shibata S, Pizzo D, Valasek M, Sasik R, Scadeng M, Okano H, Kim Y, MacLeod AR, Lowy AM, Reya T | Nature | 27281208 | Nature | 2016 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/27281208 |
| An in vivo genome-wide CRISPR screen identifies the RNA-binding protein Staufen2 as a key regulator of myeloid leukemia. | Bajaj J, Hamilton M, Shima Y, Chambers K, Spinler K, Van Nostrand EL, Yee BA, Blue SM, Chen M, Rizzeri D, Chuah C, Oehler VG, Broome HE, Sasik R, Scott-Browne J, Rao A, Yeo GW, Reya T | Nature cancer | 34109316 | Nat Cancer | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/34109316 |
| β-Arrestin2 mediates the initiation and progression of myeloid leukemia. | Fereshteh M, Ito T, Kovacs JJ, Zhao C, Kwon HY, Tornini V, Konuma T, Chen M, Lefkowitz RJ, Reya T | Proceedings of the National Academy of Sciences of the United States of America | 22773819 | Proc Natl Acad Sci U S A | 2012 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/22773819 |
| Oncogenic transformation of diverse gastrointestinal tissues in primary organoid culture. | Li X, Nadauld L, Ootani A, Corney DC, Pai RK, Gevaert O, Cantrell MA, Rack PG, Neal JT, Chan CW, Yeung T, Gong X, Yuan J, Wilhelmy J, Robine S, Attardi LD, Plevritis SK, Hung KE, Chen CZ, Ji HP, Kuo CJ | Nature medicine | 24859528 | Nat Med | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24859528 |
| Precise gene deletion and replacement using the CRISPR/Cas9 system in human cells. | Zheng Q, Cai X, Tan MH, Schaffert S, Arnold CP, Gong X, Chen CZ, Huang S | BioTechniques | 25209046 | Biotechniques | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25209046 |
| Epigenetic antagonism between polycomb and SWI/SNF complexes during oncogenic transformation. | Wilson BG, Wang X, Shen X, McKenna ES, Lemieux ME, Cho YJ, Koellhoffer EC, Pomeroy SL, Orkin SH, Roberts CW | Cancer cell | 20951942 | Cancer Cell | 2010 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/20951942 |
| Shooting for the Moon: Nanoscale Approaches to Cancer. | Hammond PT | ACS nano | 26902596 | ACS Nano | 2016 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/26902596 |
| Allele-specific detection of single mRNA molecules in situ. | Hansen CH, van Oudenaarden A | Nature methods | 23934076 | Nat Methods | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23934076 |
| Feedback control of gene expression variability in the Caenorhabditis elegans Wnt pathway. | Ji N, Middelkoop TC, Mentink RA, Betist MC, Tonegawa S, Mooijman D, Korswagen HC, van Oudenaarden A | Cell | 24209624 | Cell | 2013 Nov 7 | https://www.ncbi.nlm.nih.gov/pubmed/24209624 |
| ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells. | Ou HD, Phan S, Deerinck TJ, Thor A, Ellisman MH, O'Shea CC | Science (New York, N.Y.) | 28751582 | Science | 2017 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/28751582 |
| Spatial Control of Gene Expression by Nanocarriers Using Heparin Masking and Ultrasound-Targeted Microbubble Destruction. | Chertok B, Langer R, Anderson DG | ACS nano | 27472268 | ACS Nano | 2016 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/27472268 |
| Drug sensitivity of single cancer cells is predicted by changes in mass accumulation rate. | Stevens MM, Maire CL, Chou N, Murakami MA, Knoff DS, Kikuchi Y, Kimmerling RJ, Liu H, Haidar S, Calistri NL, Cermak N, Olcum S, Cordero NA, Idbaih A, Wen PY, Weinstock DM, Ligon KL, Manalis SR | Nature biotechnology | 27723727 | Nat Biotechnol | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27723727 |
| Stochastic cytokine expression induces mixed T helper cell States. | Fang M, Xie H, Dougan SK, Ploegh H, van Oudenaarden A | PLoS biology | 23935453 | PLoS Biol | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23935453 |
| Highly expressed loci are vulnerable to misleading ChIP localization of multiple unrelated proteins. | Teytelman L, Thurtle DM, Rine J, van Oudenaarden A | Proceedings of the National Academy of Sciences of the United States of America | 24173036 | Proc Natl Acad Sci U S A | 2013 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/24173036 |
| Integrated genetic and pharmacologic interrogation of rare cancers. | Hong AL, Tseng YY, Cowley GS, Jonas O, Cheah JH, Kynnap BD, Doshi MB, Oh C, Meyer SC, Church AJ, Gill S, Bielski CM, Keskula P, Imamovic A, Howell S, Kryukov GV, Clemons PA, Tsherniak A, Vazquez F, Crompton BD, Shamji AF, Rodriguez-Galindo C, Janeway KA, Roberts CW, Stegmaier K, van Hummelen P, Cima MJ, Langer RS, Garraway LA, Schreiber SL, Root DE, Hahn WC, Boehm JS | Nature communications | 27329820 | Nat Commun | 2016 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/27329820 |
| Synchronized cycles of bacterial lysis for in vivo delivery. | Din MO, Danino T, Prindle A, Skalak M, Selimkhanov J, Allen K, Julio E, Atolia E, Tsimring LS, Bhatia SN, Hasty J | Nature | 27437587 | Nature | 2016 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/27437587 |
| Layer-by-layer assembled fluorescent probes in the second near-infrared window for systemic delivery and detection of ovarian cancer. | Dang X, Gu L, Qi J, Correa S, Zhang G, Belcher AM, Hammond PT | Proceedings of the National Academy of Sciences of the United States of America | 27114520 | Proc Natl Acad Sci U S A | 2016 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/27114520 |
| Materials for non-viral intracellular delivery of messenger RNA therapeutics. | Kauffman KJ, Webber MJ, Anderson DG | Journal of controlled release : official journal of the Controlled Release Society | 26718856 | J Control Release | 2016 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/26718856 |
| Poly(glycoamidoamine) Brushes Formulated Nanomaterials for Systemic siRNA and mRNA Delivery in Vivo. | Dong Y, Dorkin JR, Wang W, Chang PH, Webber MJ, Tang BC, Yang J, Abutbul-Ionita I, Danino D, DeRosa F, Heartlein M, Langer R, Anderson DG | Nano letters | 26727632 | Nano Lett | 2016 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/26727632 |
| Cell intrinsic modulation of Wnt signaling controls neuroblast migration in C. elegans. | Mentink RA, Middelkoop TC, Rella L, Ji N, Tang CY, Betist MC, van Oudenaarden A, Korswagen HC | Developmental cell | 25373777 | Dev Cell | 2014 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/25373777 |
| Comparison of Modular PEG Incorporation Strategies for Stabilization of Peptide-siRNA Nanocomplexes. | Lo JH, Kwon EJ, Zhang AQ, Singhal P, Bhatia SN | Bioconjugate chemistry | 27583545 | Bioconjug Chem | 2016 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/27583545 |
| A Facile and Versatile Method to Endow Biomaterial Devices with Zwitterionic Surface Coatings. | Yesilyurt V, Veiseh O, Doloff JC, Li J, Bose S, Xie X, Bader AR, Chen M, Webber MJ, Vegas AJ, Langer R, Anderson DG | Advanced healthcare materials | 27976536 | Adv Healthc Mater | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27976536 |
| Direct evidence for cancer-cell-autonomous extracellular protein catabolism in pancreatic tumors. | Davidson SM, Jonas O, Keibler MA, Hou HW, Luengo A, Mayers JR, Wyckoff J, Del Rosario AM, Whitman M, Chin CR, Condon KJ, Lammers A, Kellersberger KA, Stall BK, Stephanopoulos G, Bar-Sagi D, Han J, Rabinowitz JD, Cima MJ, Langer R, Vander Heiden MG | Nature medicine | 28024083 | Nat Med | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28024083 |
| A Caenorhabditis elegans protein with a PRDM9-like SET domain localizes to chromatin-associated foci and promotes spermatocyte gene expression, sperm production and fertility. | Engert CG, Droste R, van Oudenaarden A, Horvitz HR | PLoS genetics | 29702639 | PLoS Genet | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29702639 |
| High-throughput measurement of single-cell growth rates using serial microfluidic mass sensor arrays. | Cermak N, Olcum S, Delgado FF, Wasserman SC, Payer KR, A Murakami M, Knudsen SM, Kimmerling RJ, Stevens MM, Kikuchi Y, Sandikci A, Ogawa M, Agache V, Baléras F, Weinstock DM, Manalis SR | Nature biotechnology | 27598230 | Nat Biotechnol | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27598230 |
| High Throughput Layer-by-Layer Films for Extracting Film Forming Parameters and Modulating Film Interactions with Cells. | Jaklenec A, Anselmo AC, Hong J, Vegas AJ, Kozminsky M, Langer R, Hammond PT, Anderson DG | ACS applied materials & interfaces | 26713554 | ACS Appl Mater Interfaces | 2016 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/26713554 |
| Dampening of expression oscillations by synchronous regulation of a microRNA and its target. | Kim Dh, Grün D, van Oudenaarden A | Nature genetics | 24036951 | Nat Genet | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24036951 |
| Periodic-shRNA molecules are capable of gene silencing, cytotoxicity and innate immune activation in cancer cells. | Shopsowitz KE, Wu C, Liu G, Dreaden EC, Hammond PT | Nucleic acids research | 26704983 | Nucleic Acids Res | 2016 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/26704983 |
| Nanoparticle-based drug delivery systems: a commercial and regulatory outlook as the field matures. | Ragelle H, Danhier F, Préat V, Langer R, Anderson DG | Expert opinion on drug delivery | 27730820 | Expert Opin Drug Deliv | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27730820 |
| Development of Light-Activated CRISPR Using Guide RNAs with Photocleavable Protectors. | Jain PK, Ramanan V, Schepers AG, Dalvie NS, Panda A, Fleming HE, Bhatia SN | Angewandte Chemie (International ed. in English) | 27554600 | Angew Chem Int Ed Engl | 2016 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/27554600 |
| First In Vivo Testing of Compounds Targeting Group 3 Medulloblastomas Using an Implantable Microdevice as a New Paradigm for Drug Development. | Jonas O, Calligaris D, Methuku KR, Poe MM, Francois JP, Tranghese F, Changelian A, Sieghart W, Ernst M, Krummel DA, Cook JM, Pomeroy SL, Cima M, Agar NY, Langer R, Sengupta S | Journal of biomedical nanotechnology | 27319222 | J Biomed Nanotechnol | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27319222 |
| Transcriptional profiling of cells sorted by RNA abundance. | Klemm S, Semrau S, Wiebrands K, Mooijman D, Faddah DA, Jaenisch R, van Oudenaarden A | Nature methods | 24681693 | Nat Methods | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24681693 |
| Engineering nanolayered particles for modular drug delivery. | Correa S, Dreaden EC, Gu L, Hammond PT | Journal of controlled release : official journal of the Controlled Release Society | 26809005 | J Control Release | 2016 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/26809005 |
| FuseFISH: robust detection of transcribed gene fusions in single cells. | Semrau S, Crosetto N, Bienko M, Boni M, Bernasconi P, Chiarle R, van Oudenaarden A | Cell reports | 24373969 | Cell Rep | 2014 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/24373969 |
| Cells change their sensitivity to an EGF morphogen gradient to control EGF-induced gene expression. | van Zon JS, Kienle S, Huelsz-Prince G, Barkoulas M, van Oudenaarden A | Nature communications | 25958991 | Nat Commun | 2015 May 11 | https://www.ncbi.nlm.nih.gov/pubmed/25958991 |
| Structural arrangement of the intracellular Ca2+ binding domains of the cardiac Na+/Ca2+ exchanger (NCX1.1): effects of Ca2+ binding. | Dixit M, Kim S, Matthews GF, Erreger K, Galli A, Cobb CE, Hustedt EJ, Beth AH | The Journal of biological chemistry | 23233681 | J Biol Chem | 2013 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/23233681 |
| Discovery of a potent stapled helix peptide that binds to the 70N domain of replication protein A. | Frank AO, Vangamudi B, Feldkamp MD, Souza-Fagundes EM, Luzwick JW, Cortez D, Olejniczak ET, Waterson AG, Rossanese OW, Chazin WJ, Fesik SW | Journal of medicinal chemistry | 24491171 | J Med Chem | 2014 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/24491171 |
| Untangling the web: the diverse functions of the PIWI/piRNA pathway. | Mani SR, Juliano CE | Molecular reproduction and development | 23712694 | Mol Reprod Dev | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23712694 |
| Piwi maintains germline stem cells and oogenesis in Drosophila through negative regulation of Polycomb group proteins. | Peng JC, Valouev A, Liu N, Lin H | Nature genetics | 26780607 | Nat Genet | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26780607 |
| The Role of Maternal HP1a in Early Drosophila Embryogenesis via Regulation of Maternal Transcript Production. | Park AR, Liu N, Neuenkirchen N, Guo Q, Lin H | Genetics | 30442760 | Genetics | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30442760 |
| A critical role for nucleoporin 358 (Nup358) in transposon silencing and piRNA biogenesis in Drosophila. | Parikh RY, Lin H, Gangaraju VK | The Journal of biological chemistry | 29735528 | J Biol Chem | 2018 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/29735528 |
| Capturing the cloud: UAP56 in nuage assembly and function. | Lin H | Cell | 23141532 | Cell | 2012 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/23141532 |
| Genome-wide mapping of Piwi association with specific loci in Drosophila ovaries. | Liu N, Neuenkirchen N, Zhong M, Lin H | G3 (Bethesda, Md.) | 33609367 | G3 (Bethesda) | 2021 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/33609367 |
| Beyond transposons: the epigenetic and somatic functions of the Piwi-piRNA mechanism. | Peng JC, Lin H | Current opinion in cell biology | 23465540 | Curr Opin Cell Biol | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23465540 |
| Function of Piwi, a nuclear Piwi/Argonaute protein, is independent of its slicer activity. | Darricarrère N, Liu N, Watanabe T, Lin H | Proceedings of the National Academy of Sciences of the United States of America | 23297219 | Proc Natl Acad Sci U S A | 2013 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/23297219 |
| Chromatin immunoprecipitation assay of Piwi in Drosophila. | Yin H, Lin H | Methods in molecular biology (Clifton, N.J.) | 24178552 | Methods Mol Biol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24178552 |
| PIWI proteins are essential for early Drosophila embryogenesis. | Mani SR, Megosh H, Lin H | Developmental biology | 24184635 | Dev Biol | 2014 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/24184635 |
| Poreless eggshells. | Lin H, Matzuk MM | The Journal of clinical investigation | 26485282 | J Clin Invest | 2015 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/26485282 |
| Posttranscriptional regulation of gene expression by Piwi proteins and piRNAs. | Watanabe T, Lin H | Molecular cell | 25280102 | Mol Cell | 2014 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/25280102 |
| Tudor-SN Interacts with Piwi Antagonistically in Regulating Spermatogenesis but Synergistically in Silencing Transposons in Drosophila. | Ku HY, Gangaraju VK, Qi H, Liu N, Lin H | PLoS genetics | 26808625 | PLoS Genet | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26808625 |
| PIWI proteins and PIWI-interacting RNAs in the soma. | Ross RJ, Weiner MM, Lin H | Nature | 24429634 | Nature | 2014 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/24429634 |
| PIWI proteins and their interactors in piRNA biogenesis, germline development and gene expression. | Ku HY, Lin H | National science review | 25512877 | Natl Sci Rev | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25512877 |
| Targeting Dysregulated Ion Channels in Liver Tumors with Venom Peptides. | Achimba F, Faezov B, Cohen B, Dunbrack R, Holford M | Molecular cancer therapeutics | 38015557 | Mol Cancer Ther | 2024 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/38015557 |
| Phylogenomics of Neogastropoda: The Backbone Hidden in the Bush. | Fedosov AE, Zaharias P, Lemarcis T, Modica MV, Holford M, Oliverio M, Kantor YI, Puillandre N | Systematic biology | 38456663 | Syst Biol | 2024 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/38456663 |
| Multifunctional Neural Probes Enable Bidirectional Electrical, Optical, and Chemical Recording and Stimulation In Vivo. | Driscoll N, Antonini MJ, Cannon TM, Maretich P, Olaitan G, Van VDP, Nagao K, Sahasrabudhe A, Paniagua EV, Frey EJ, Kim YJ, Hunt S, Hummel M, Mupparaju S, Jasanoff A, Venton BJ, Anikeeva P | Advanced materials (Deerfield Beach, Fla.) | 39506430 | Adv Mater | 2024 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/39506430 |
| Magnetite Nanodiscs Activate Mechanotransductive Calcium Signaling in Diverse Cell Types. | Beckham JL, Kim YJ, Vargas Paniagua E, Kent N, Nagao K, Selvaraji S, Koehler F, Malkin E, Smith X, Tabet A, Kang S, Anikeeva P | Journal of the American Chemical Society | 40215485 | J Am Chem Soc | 2025 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/40215485 |
| Modulating cell signalling in vivo with magnetic nanotransducers. | Romero G, Park J, Koehler F, Pralle A, Anikeeva P | Nature reviews. Methods primers | 38111858 | Nat Rev Methods Primers | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38111858 |
| Fiber-based Probes for Electrophysiology, Photometry, Optical and Electrical Stimulation, Drug Delivery, and Fast-Scan Cyclic Voltammetry In Vivo. | Driscoll N, Antonini MJ, Cannon TM, Maretich P, Olaitan G, Phi Van VD, Nagao K, Sahasrabudhe A, Vargas E, Hunt S, Hummel M, Mupparaju S, Jasanoff A, Venton J, Anikeeva P | bioRxiv : the preprint server for biology | 38895451 | bioRxiv | 2024 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/38895451 |
| Magnetoelectric nanodiscs enable wireless transgene-free neuromodulation. | Kim YJ, Kent N, Vargas Paniagua E, Driscoll N, Tabet A, Koehler F, Malkin E, Frey E, Manthey M, Sahasrabudhe A, Cannon TM, Nagao K, Mankus D, Bisher M, de Nola G, Lytton-Jean A, Signorelli L, Gregurec D, Anikeeva P | Nature nanotechnology | 39394431 | Nat Nanotechnol | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39394431 |
| Changes in Brain Neuroimmunology Following Injury and Disease. | Tabet A, Apra C, Stranahan AM, Anikeeva P | Frontiers in integrative neuroscience | 35573444 | Front Integr Neurosci | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35573444 |
| Magnetoelectric Nanodiscs Enable Wireless Transgene-Free Neuromodulation. | Kim YJ, Driscoll N, Kent N, Paniagua EV, Tabet A, Koehler F, Manthey M, Sahasrabudhe A, Signorelli L, Gregureć D, Anikeeva P | bioRxiv : the preprint server for biology | 38234742 | bioRxiv | 2023 Dec 25 | https://www.ncbi.nlm.nih.gov/pubmed/38234742 |
| Multifunctional microelectronic fibers enable wireless modulation of gut and brain neural circuits. | Sahasrabudhe A, Rupprecht LE, Orguc S, Khudiyev T, Tanaka T, Sands J, Zhu W, Tabet A, Manthey M, Allen H, Loke G, Antonini MJ, Rosenfeld D, Park J, Garwood IC, Yan W, Niroui F, Fink Y, Chandrakasan A, Bohórquez DV, Anikeeva P | Nature biotechnology | 37349522 | Nat Biotechnol | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37349522 |
| Estimation of Current and Future Physiological States in Insular Cortex. | Livneh Y, Sugden AU, Madara JC, Essner RA, Flores VI, Sugden LA, Resch JM, Lowell BB, Andermann ML | Neuron | 31955944 | Neuron | 2020 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/31955944 |
| Sensory cortical ensembles exhibit differential coupling to ripples in distinct hippocampal subregions. | Jeong H, Namboodiri VMK, Jung MW, Andermann ML | bioRxiv : the preprint server for biology | 36993665 | bioRxiv | 2023 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/36993665 |
| Choroid plexus-targeted NKCC1 overexpression to treat post-hemorrhagic hydrocephalus. | Sadegh C, Xu H, Sutin J, Fatou B, Gupta S, Pragana A, Taylor M, Kalugin PN, Zawadzki ME, Alturkistani O, Shipley FB, Dani N, Fame RM, Wurie Z, Talati P, Schleicher RL, Klein EM, Zhang Y, Holtzman MJ, Moore CI, Lin PY, Patel AB, Warf BC, Kimberly WT, Steen H, Andermann ML, Lehtinen MK | Neuron | 36893755 | Neuron | 2023 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/36893755 |
| History-dependent dopamine release increases cAMP levels in most basal amygdala glutamatergic neurons to control learning. | Lutas A, Fernando K, Zhang SX, Sambangi A, Andermann ML | Cell reports | 35081349 | Cell Rep | 2022 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/35081349 |
| Sensitization of meningeal afferents to locomotion-related meningeal deformations in a migraine model. | Blaeser AS, Zhao J, Sugden AU, Carneiro-Nascimento S, Andermann ML, Levy D | bioRxiv : the preprint server for biology | 37577675 | bioRxiv | 2023 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/37577675 |
| The choroid plexus synergizes with immune cells during neuroinflammation. | Xu H, Lotfy P, Gelb S, Pragana A, Hehnly C, Byer LIJ, Shipley FB, Zawadzki ME, Cui J, Deng L, Taylor M, Webb M, Lidov HGW, Andermann ML, Chiu IM, Ordovas-Montanes J, Lehtinen MK | Cell | 39089253 | Cell | 2024 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/39089253 |
| Hypothalamic dopamine neurons motivate mating through persistent cAMP signalling. | Zhang SX, Lutas A, Yang S, Diaz A, Fluhr H, Nagel G, Gao S, Andermann ML | Nature | 34433964 | Nature | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/34433964 |
| Tracking Calcium Dynamics and Immune Surveillance at the Choroid Plexus Blood-Cerebrospinal Fluid Interface. | Shipley FB, Dani N, Xu H, Deister C, Cui J, Head JP, Sadegh C, Fame RM, Shannon ML, Flores VI, Kishkovich T, Jang E, Klein EM, Goldey GJ, He K, Zhang Y, Holtzman MJ, Kirchhausen T, Wyart C, Moore CI, Andermann ML, Lehtinen MK | Neuron | 32961128 | Neuron | 2020 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/32961128 |
| Brainstem serotonin neurons selectively gate retinal information flow to thalamus. | Reggiani JDS, Jiang Q, Barbini M, Lutas A, Liang L, Fernando J, Deng F, Wan J, Li Y, Chen C, Andermann ML | Neuron | 36584680 | Neuron | 2023 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/36584680 |
| Sensory cortical ensembles exhibit differential coupling to ripples in distinct hippocampal subregions. | Jeong H, Namboodiri VMK, Jung MW, Andermann ML | Current biology : CB | 37995696 | Curr Biol | 2023 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/37995696 |
| Stochastic neuropeptide signals compete to calibrate the rate of satiation. | Zhang SX, Kim A, Madara JC, Zhu PK, Christenson LF, Lutas A, Kalugin PN, Sunkavalli PS, Jin Y, Pal A, Tian L, Lowell BB, Andermann ML | Nature | 39506113 | Nature | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39506113 |
| Retinal Inputs to the Thalamus Are Selectively Gated by Arousal. | Liang L, Fratzl A, Reggiani JDS, El Mansour O, Chen C, Andermann ML | Current biology : CB | 32795442 | Curr Biol | 2020 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/32795442 |
| Cellular activity in insular cortex across seconds to hours: Sensations and predictions of bodily states. | Livneh Y, Andermann ML | Neuron | 34582784 | Neuron | 2021 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/34582784 |
| Visual association cortex links cues with conjunctions of reward and locomotor contexts. | McGuire KL, Amsalem O, Sugden AU, Ramesh RN, Fernando J, Burgess CR, Andermann ML | Current biology : CB | 35245458 | Curr Biol | 2022 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/35245458 |
| Cortical reactivations predict future sensory responses. | Nguyen ND, Lutas A, Amsalem O, Fernando J, Ahn AY, Hakim R, Vergara J, McMahon J, Dimidschstein J, Sabatini BL, Andermann ML | Nature | 38093002 | Nature | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38093002 |
| A spatially-resolved transcriptional atlas of the murine dorsal pons at single-cell resolution. | Nardone S, De Luca R, Zito A, Klymko N, Nicoloutsopoulos D, Amsalem O, Brannigan C, Resch JM, Jacobs CL, Pant D, Veregge M, Srinivasan H, Grippo RM, Yang Z, Zeidel ML, Andermann ML, Harris KD, Tsai LT, Arrigoni E, Verstegen AMJ, Saper CB, Lowell BB | bioRxiv : the preprint server for biology | 38014113 | bioRxiv | 2023 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/38014113 |
| Transient cAMP production drives rapid and sustained spiking in brainstem parabrachial neurons to suppress feeding. | Singh Alvarado J, Lutas A, Madara JC, Isaac J, Lommer C, Massengill C, Andermann ML | Neuron | 38417435 | Neuron | 2024 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/38417435 |
| Sensitization of meningeal afferents to locomotion-related meningeal deformations in a migraine model. | Blaeser AS, Zhao J, Sugden AU, Carneiro-Nascimento S, Andermann ML, Levy D | eLife | 38329894 | Elife | 2024 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/38329894 |
| Trigeminal afferents sense locomotion-related meningeal deformations. | Blaeser AS, Sugden AU, Zhao J, Carneiro-Nascimento S, Shipley FB, Carrié H, Andermann ML, Levy D | Cell reports | 36384109 | Cell Rep | 2022 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/36384109 |
| Competition between stochastic neuropeptide signals calibrates the rate of satiation. | Zhang SX, Kim A, Madara JC, Zhu PK, Christenson LF, Lutas A, Kalugin PN, Jin Y, Pal A, Tian L, Lowell BB, Andermann ML | Research square | 37546985 | Res Sq | 2023 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/37546985 |
| A spatially-resolved transcriptional atlas of the murine dorsal pons at single-cell resolution. | Nardone S, De Luca R, Zito A, Klymko N, Nicoloutsopoulos D, Amsalem O, Brannigan C, Resch JM, Jacobs CL, Pant D, Veregge M, Srinivasan H, Grippo RM, Yang Z, Zeidel ML, Andermann ML, Harris KD, Tsai LT, Arrigoni E, Verstegen AMJ, Saper CB, Lowell BB | Nature communications | 38438345 | Nat Commun | 2024 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/38438345 |
| Repeated stress triggers seeking of a starvation-like state in anxiety-prone female mice. | Kucukdereli H, Amsalem O, Pottala T, Lim M, Potgieter L, Hasbrouck A, Lutas A, Andermann ML | Neuron | 38642553 | Neuron | 2024 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/38642553 |
| Host variables confound gut microbiota studies of human disease. | Vujkovic-Cvijin I, Sklar J, Jiang L, Natarajan L, Knight R, Belkaid Y | Nature | 33149306 | Nature | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33149306 |
| Chemically informed analyses of metabolomics mass spectrometry data with Qemistree. | Tripathi A, Vázquez-Baeza Y, Gauglitz JM, Wang M, Dührkop K, Nothias-Esposito M, Acharya DD, Ernst M, van der Hooft JJJ, Zhu Q, McDonald D, Brejnrod AD, Gonzalez A, Handelsman J, Fleischauer M, Ludwig M, Böcker S, Nothias LF, Knight R, Dorrestein PC | Nature chemical biology | 33199911 | Nat Chem Biol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33199911 |
| Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity. | Martino C, Kellman BP, Sandoval DR, Clausen TM, Marotz CA, Song SJ, Wandro S, Zaramela LS, Salido Benítez RA, Zhu Q, Armingol E, Vázquez-Baeza Y, McDonald D, Sorrentino JT, Taylor B, Belda-Ferre P, Liang C, Zhang Y, Schifanella L, Klatt NR, Havulinna AS, Jousilahti P, Huang S, Haiminen N, Parida L, Kim HC, Swafford AD, Zengler K, Cheng S, Inouye M, Niiranen T, Jain M, Salomaa V, Esko JD, Lewis NE, Knight R | bioRxiv : the preprint server for biology | 32839779 | bioRxiv | 2020 Aug 18 | https://www.ncbi.nlm.nih.gov/pubmed/32839779 |
| Context-aware dimensionality reduction deconvolutes gut microbial community dynamics. | Martino C, Shenhav L, Marotz CA, Armstrong G, McDonald D, Vázquez-Baeza Y, Morton JT, Jiang L, Dominguez-Bello MG, Swafford AD, Halperin E, Knight R | Nature biotechnology | 32868914 | Nat Biotechnol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32868914 |
| A Sensitive, Rapid, and Portable CasRx-based Diagnostic Assay for SARS-CoV-2. | Brogan DJ, Chaverra-Rodriguez D, Lin CP, Smidler AL, Yang T, Alcantara LM, Antoshechkin I, Liu J, Raban RR, Belda-Ferre P, Knight R, Komives EA, Akbari OS | medRxiv : the preprint server for health sciences | 33106816 | medRxiv | 2020 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/33106816 |
| Optimizing UniFrac with OpenACC Yields Greater Than One Thousand Times Speed Increase. | Sfiligoi I, Armstrong G, Gonzalez A, McDonald D, Knight R | mSystems | 35638356 | mSystems | 2022 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/35638356 |
| The International Space Station has a unique and extreme microbial and chemical environment driven by use patterns. | Salido RA, Zhao HN, McDonald D, Mannochio-Russo H, Zuffa S, Oles RE, Aron AT, El Abiead Y, Farmer S, González A, Martino C, Mohanty I, Parker CW, Patel L, Portal Gomes PW, Schmid R, Schwartz T, Zhu J, Barratt MR, Rubins KH, Chu H, Karouia F, Venkateswaran K, Dorrestein PC, Knight R | Cell | 40020666 | Cell | 2025 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/40020666 |
| Incomplete human reference genomes can drive false sex biases and expose patient-identifying information in metagenomic data. | Guccione C, Patel L, Tomofuji Y, McDonald D, Gonzalez A, Sepich-Poore GD, Sonehara K, Zakeri M, Chen Y, Dilmore AH, Damle N, Baranzini SE, Nakatsuji T, Gallo RL, Langmead B, Okada Y, Curtius K, Knight R | Research square | 39502785 | Res Sq | 2024 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/39502785 |
| microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data. | Zuffa S, Schmid R, Bauermeister A, P Gomes PW, Caraballo-Rodriguez AM, El Abiead Y, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, Pessotti RC, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Silva Dos Santos M, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, Vera Ponce de León A, Pope PB, La Rosa SL, La Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC | Nature microbiology | 38316926 | Nat Microbiol | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38316926 |
| TEMPTED: time-informed dimensionality reduction for longitudinal microbiome studies. | Shi P, Martino C, Han R, Janssen S, Buck G, Serrano M, Owzar K, Knight R, Shenhav L, Zhang AR | Genome biology | 39696594 | Genome Biol | 2024 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/39696594 |
| Enhancing untargeted metabolomics using metadata-based source annotation. | Gauglitz JM, West KA, Bittremieux W, Williams CL, Weldon KC, Panitchpakdi M, Di Ottavio F, Aceves CM, Brown E, Sikora NC, Jarmusch AK, Martino C, Tripathi A, Meehan MJ, Dorrestein K, Shaffer JP, Coras R, Vargas F, Goldasich LD, Schwartz T, Bryant M, Humphrey G, Johnson AJ, Spengler K, Belda-Ferre P, Diaz E, McDonald D, Zhu Q, Elijah EO, Wang M, Marotz C, Sprecher KE, Vargas-Robles D, Withrow D, Ackermann G, Herrera L, Bradford BJ, Marques LMM, Amaral JG, Silva RM, Veras FP, Cunha TM, Oliveira RDR, Louzada-Junior P, Mills RH, Piotrowski PK, Servetas SL, Da Silva SM, Jones CM, Lin NJ, Lippa KA, Jackson SA, Daouk RK, Galasko D, Dulai PS, Kalashnikova TI, Wittenberg C, Terkeltaub R, Doty MM, Kim JH, Rhee KE, Beauchamp-Walters J, Wright KP Jr, Dominguez-Bello MG, Manary M, Oliveira MF, Boland BS, Lopes NP, Guma M, Swafford AD, Dutton RJ, Knight R, Dorrestein PC | Nature biotechnology | 35798960 | Nat Biotechnol | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35798960 |
| Challenges in Determining the Role of Microbiome Evolution in Barrett's Esophagus and Progression to Esophageal Adenocarcinoma. | Guccione C, Yadlapati R, Shah S, Knight R, Curtius K | Microorganisms | 34683324 | Microorganisms | 2021 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/34683324 |
| Cancer's second genome: Microbial cancer diagnostics and redefining clonal evolution as a multispecies process: Humans and their tumors are not aseptic, and the multispecies nature of cancer modulates clinical care and clonal evolution: Humans and their tumors are not aseptic, and the multispecies nature of cancer modulates clinical care and clonal evolution. | Sepich-Poore GD, Guccione C, Laplane L, Pradeu T, Curtius K, Knight R | BioEssays : news and reviews in molecular, cellular and developmental biology | 35253252 | Bioessays | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35253252 |
| Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. | Zhu Q, Huang S, Gonzalez A, McGrath I, McDonald D, Haiminen N, Armstrong G, Vázquez-Baeza Y, Yu J, Kuczynski J, Sepich-Poore GD, Swafford AD, Das P, Shaffer JP, Lejzerowicz F, Belda-Ferre P, Havulinna AS, Méric G, Niiranen T, Lahti L, Salomaa V, Kim HC, Jain M, Inouye M, Gilbert JA, Knight R | mSystems | 35369727 | mSystems | 2022 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/35369727 |
| Global chemical effects of the microbiome include new bile-acid conjugations. | Quinn RA, Melnik AV, Vrbanac A, Fu T, Patras KA, Christy MP, Bodai Z, Belda-Ferre P, Tripathi A, Chung LK, Downes M, Welch RD, Quinn M, Humphrey G, Panitchpakdi M, Weldon KC, Aksenov A, da Silva R, Avila-Pacheco J, Clish C, Bae S, Mallick H, Franzosa EA, Lloyd-Price J, Bussell R, Thron T, Nelson AT, Wang M, Leszczynski E, Vargas F, Gauglitz JM, Meehan MJ, Gentry E, Arthur TD, Komor AC, Poulsen O, Boland BS, Chang JT, Sandborn WJ, Lim M, Garg N, Lumeng JC, Xavier RJ, Kazmierczak BI, Jain R, Egan M, Rhee KE, Ferguson D, Raffatellu M, Vlamakis H, Haddad GG, Siegel D, Huttenhower C, Mazmanian SK, Evans RM, Nizet V, Knight R, Dorrestein PC | Nature | 32103176 | Nature | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32103176 |
| Implementation of Practical Surface SARS-CoV-2 Surveillance in School Settings. | Cantú VJ, Belda-Ferre P, Salido RA, Tsai R, Austin B, Jordan W, Asudani M, Walster A, Magallanes CG, Valentine H, Manjoonian A, Wijaya C, Omaleki V, Sanders K, Aigner S, Baer NA, Betty M, Castro-Martínez A, Cheung W, Crescini ES, De Hoff P, Eisner E, Hakim A, Kapadia B, Lastrella AL, Lawrence ES, Ngo TT, Ostrander T, Sathe S, Seaver P, Smoot EW, Carlin AF, Yeo GW, Laurent LC, Manlutac AL, Fielding-Miller R, Knight R | mSystems | 35703437 | mSystems | 2022 Aug 30 | https://www.ncbi.nlm.nih.gov/pubmed/35703437 |
| A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities. | Shaffer JP, Carpenter CS, Martino C, Salido RA, Minich JJ, Bryant M, Sanders K, Schwartz T, Humphrey G, Swafford AD, Knight R | BioTechniques | 35713407 | Biotechniques | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35713407 |
| The Gut Microbial Bile Acid Modulation and Its Relevance to Digestive Health and Diseases. | Fogelson KA, Dorrestein PC, Zarrinpar A, Knight R | Gastroenterology | 36841488 | Gastroenterology | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/36841488 |
| Applications and Comparison of Dimensionality Reduction Methods for Microbiome Data. | Armstrong G, Rahman G, Martino C, McDonald D, Gonzalez A, Mishne G, Knight R | Frontiers in bioinformatics | 36304280 | Front Bioinform | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36304280 |
| Zebra: Static and Dynamic Genome Cover Thresholds with Overlapping References. | Hakim D, Wandro S, Zengler K, Zaramela LS, Nowinski B, Swafford A, Zhu Q, Song SJ, Gonzalez A, McDonald D, Knight R | mSystems | 36073806 | mSystems | 2022 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/36073806 |
| Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions. | Narunsky-Haziza L, Sepich-Poore GD, Livyatan I, Asraf O, Martino C, Nejman D, Gavert N, Stajich JE, Amit G, González A, Wandro S, Perry G, Ariel R, Meltser A, Shaffer JP, Zhu Q, Balint-Lahat N, Barshack I, Dadiani M, Gal-Yam EN, Patel SP, Bashan A, Swafford AD, Pilpel Y, Knight R, Straussman R | Cell | 36179670 | Cell | 2022 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/36179670 |
| Maximizing the potential of high-throughput next-generation sequencing through precise normalization based on read count distribution. | Brennan C, Salido RA, Belda-Ferre P, Bryant M, Cowart C, Tiu MD, González A, McDonald D, Tribelhorn C, Zarrinpar A, Knight R | mSystems | 37350611 | mSystems | 2023 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/37350611 |
| Determination of Effect Sizes for Power Analysis for Microbiome Studies Using Large Microbiome Databases. | Rahman G, McDonald D, Gonzalez A, Vázquez-Baeza Y, Jiang L, Casals-Pascual C, Hakim D, Dilmore AH, Nowinski B, Peddada S, Knight R | Genes | 37372419 | Genes (Basel) | 2023 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/37372419 |
| Improving microbial phylogeny with citizen science within a mass-market video game. | Sarrazin-Gendron R, Ghasemloo Gheidari P, Butyaev A, Keding T, Cai E, Zheng J, Mutalova R, Mounthanyvong J, Zhu Y, Nazarova E, Drogaris C, Erhart K, Borderlands Science Development Team, Borderlands Science players, Brouillette A, Richard G, Pitchford R, Caisse S, Blanchette M, McDonald D, Knight R, Szantner A, Waldispühl J | Nature biotechnology | 38622344 | Nat Biotechnol | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38622344 |
| Microbial context predicts SARS-CoV-2 prevalence in patients and the hospital built environment. | Marotz C, Belda-Ferre P, Ali F, Das P, Huang S, Cantrell K, Jiang L, Martino C, Diner RE, Rahman G, McDonald D, Armstrong G, Kodera S, Donato S, Ecklu-Mensah G, Gottel N, Garcia MCS, Chiang LY, Salido RA, Shaffer JP, Bryant M, Sanders K, Humphrey G, Ackermann G, Haiminen N, Beck KL, Kim HC, Carrieri AP, Parida L, Vázquez-Baeza Y, Torriani FJ, Knight R, Gilbert JA, Sweeney DA, Allard SM | medRxiv : the preprint server for health sciences | 33236030 | medRxiv | 2020 Nov 22 | https://www.ncbi.nlm.nih.gov/pubmed/33236030 |
| Evaluating Organism-Wide Changes in the Metabolome and Microbiome following a Single Dose of Antibiotic. | Vrbanac A, Patras KA, Jarmusch AK, Mills RH, Shing SR, Quinn RA, Vargas F, Gonzalez DJ, Dorrestein PC, Knight R, Nizet V | mSystems | 33024048 | mSystems | 2020 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/33024048 |
| SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment. | Marotz C, Belda-Ferre P, Ali F, Das P, Huang S, Cantrell K, Jiang L, Martino C, Diner RE, Rahman G, McDonald D, Armstrong G, Kodera S, Donato S, Ecklu-Mensah G, Gottel N, Salas Garcia MC, Chiang LY, Salido RA, Shaffer JP, Bryant MK, Sanders K, Humphrey G, Ackermann G, Haiminen N, Beck KL, Kim HC, Carrieri AP, Parida L, Vázquez-Baeza Y, Torriani FJ, Knight R, Gilbert J, Sweeney DA, Allard SM | Microbiome | 34103074 | Microbiome | 2021 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/34103074 |
| Candidate probiotic Lactiplantibacillus plantarum HNU082 rapidly and convergently evolves within human, mice, and zebrafish gut but differentially influences the resident microbiome. | Huang S, Jiang S, Huo D, Allaband C, Estaki M, Cantu V, Belda-Ferre P, Vázquez-Baeza Y, Zhu Q, Ma C, Li C, Zarrinpar A, Liu YY, Knight R, Zhang J | Microbiome | 34193290 | Microbiome | 2021 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/34193290 |
| SARS-CoV-2 Distribution in Residential Housing Suggests Contact Deposition and Correlates with Rothia sp. | Cantú VJ, Salido RA, Huang S, Rahman G, Tsai R, Valentine H, Magallanes CG, Aigner S, Baer NA, Barber T, Belda-Ferre P, Betty M, Bryant M, Casas Maya M, Castro-Martínez A, Chacón M, Cheung W, Crescini ES, De Hoff P, Eisner E, Farmer S, Hakim A, Kohn L, Lastrella AL, Lawrence ES, Morgan SC, Ngo TT, Nouri A, Plascencia A, Ruiz CA, Sathe S, Seaver P, Shwartz T, Smoot EW, Ostrander RT, Valles T, Yeo GW, Laurent LC, Fielding-Miller R, Knight R | mSystems | 35575492 | mSystems | 2022 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/35575492 |
| Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission. | Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, Mchardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Barrett KMS, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R | medRxiv : the preprint server for health sciences | 35411350 | medRxiv | 2022 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/35411350 |
| Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission. | Karthikeyan S, Levy JI, De Hoff P, Humphrey G, Birmingham A, Jepsen K, Farmer S, Tubb HM, Valles T, Tribelhorn CE, Tsai R, Aigner S, Sathe S, Moshiri N, Henson B, Mark AM, Hakim A, Baer NA, Barber T, Belda-Ferre P, Chacón M, Cheung W, Cresini ES, Eisner ER, Lastrella AL, Lawrence ES, Marotz CA, Ngo TT, Ostrander T, Plascencia A, Salido RA, Seaver P, Smoot EW, McDonald D, Neuhard RM, Scioscia AL, Satterlund AM, Simmons EH, Abelman DB, Brenner D, Bruner JC, Buckley A, Ellison M, Gattas J, Gonias SL, Hale M, Hawkins F, Ikeda L, Jhaveri H, Johnson T, Kellen V, Kremer B, Matthews G, McLawhon RW, Ouillet P, Park D, Pradenas A, Reed S, Riggs L, Sanders A, Sollenberger B, Song A, White B, Winbush T, Aceves CM, Anderson C, Gangavarapu K, Hufbauer E, Kurzban E, Lee J, Matteson NL, Parker E, Perkins SA, Ramesh KS, Robles-Sikisaka R, Schwab MA, Spencer E, Wohl S, Nicholson L, McHardy IH, Dimmock DP, Hobbs CA, Bakhtar O, Harding A, Mendoza A, Bolze A, Becker D, Cirulli ET, Isaksson M, Schiabor Barrett KM, Washington NL, Malone JD, Schafer AM, Gurfield N, Stous S, Fielding-Miller R, Garfein RS, Gaines T, Anderson C, Martin NK, Schooley R, Austin B, MacCannell DR, Kingsmore SF, Lee W, Shah S, McDonald E, Yu AT, Zeller M, Fisch KM, Longhurst C, Maysent P, Pride D, Khosla PK, Laurent LC, Yeo GW, Andersen KG, Knight R | Nature | 35798029 | Nature | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35798029 |
| A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities. | Shaffer JP, Marotz C, Belda-Ferre P, Martino C, Wandro S, Estaki M, Salido RA, Carpenter CS, Zaramela LS, Minich JJ, Bryant M, Sanders K, Fraraccio S, Ackermann G, Humphrey G, Swafford AD, Miller-Montgomery S, Knight R | BioTechniques | 33512248 | Biotechniques | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33512248 |
| Development of a Rapid and Sensitive CasRx-Based Diagnostic Assay for SARS-CoV-2. | Brogan DJ, Chaverra-Rodriguez D, Lin CP, Smidler AL, Yang T, Alcantara LM, Antoshechkin I, Liu J, Raban RR, Belda-Ferre P, Knight R, Komives EA, Akbari OS | ACS sensors | 34714054 | ACS Sens | 2021 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/34714054 |
| Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype. | Martino C, McDonald D, Cantrell K, Dilmore AH, Vázquez-Baeza Y, Shenhav L, Shaffer JP, Rahman G, Armstrong G, Allaband C, Song SJ, Knight R | mSystems | 35477286 | mSystems | 2022 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/35477286 |
| A Taxonomically-informed Mass Spectrometry Search Tool for Microbial Metabolomics Data. | Zuffa S, Schmid R, Bauermeister A, Gomes PWP, Caraballo-Rodriguez AM, Abiead YE, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, de Cassia Pessotti R, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Dos Santos MS, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, de León AVP, Pope PB, Rosa SL, Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC | Research square | 37577622 | Res Sq | 2023 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/37577622 |
| Paired microbiome and metabolome analyses associate bile acid changes with colorectal cancer progression. | Fu T, Huan T, Rahman G, Zhi H, Xu Z, Oh TG, Guo J, Coulter S, Tripathi A, Martino C, McCarville JL, Zhu Q, Cayabyab F, Low B, He M, Xing S, Vargas F, Yu RT, Atkins A, Liddle C, Ayres J, Raffatellu M, Dorrestein PC, Downes M, Knight R, Evans RM | Cell reports | 37611587 | Cell Rep | 2023 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/37611587 |
| Standardized multi-omics of Earth's microbiomes reveals microbial and metabolite diversity. | Shaffer JP, Nothias LF, Thompson LR, Sanders JG, Salido RA, Couvillion SP, Brejnrod AD, Lejzerowicz F, Haiminen N, Huang S, Lutz HL, Zhu Q, Martino C, Morton JT, Karthikeyan S, Nothias-Esposito M, Dührkop K, Böcker S, Kim HW, Aksenov AA, Bittremieux W, Minich JJ, Marotz C, Bryant MM, Sanders K, Schwartz T, Humphrey G, Vásquez-Baeza Y, Tripathi A, Parida L, Carrieri AP, Beck KL, Das P, González A, McDonald D, Ladau J, Karst SM, Albertsen M, Ackermann G, DeReus J, Thomas T, Petras D, Shade A, Stegen J, Song SJ, Metz TO, Swafford AD, Dorrestein PC, Jansson JK, Gilbert JA, Knight R, Earth Microbiome Project 500 (EMP500) Consortium | Nature microbiology | 36443458 | Nat Microbiol | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36443458 |
| Greengenes2 unifies microbial data in a single reference tree. | McDonald D, Jiang Y, Balaban M, Cantrell K, Zhu Q, Gonzalez A, Morton JT, Nicolaou G, Parks DH, Karst SM, Albertsen M, Hugenholtz P, DeSantis T, Song SJ, Bartko A, Havulinna AS, Jousilahti P, Cheng S, Inouye M, Niiranen T, Jain M, Salomaa V, Lahti L, Mirarab S, Knight R | Nature biotechnology | 37500913 | Nat Biotechnol | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/37500913 |
| Generation of accurate, expandable phylogenomic trees with uDance. | Balaban M, Jiang Y, Zhu Q, McDonald D, Knight R, Mirarab S | Nature biotechnology | 37500914 | Nat Biotechnol | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/37500914 |
| Naturalization of the microbiota developmental trajectory of Cesarean-born neonates after vaginal seeding. | Song SJ, Wang J, Martino C, Jiang L, Thompson WK, Shenhav L, McDonald D, Marotz C, Harris PR, Hernandez CD, Henderson N, Ackley E, Nardella D, Gillihan C, Montacuti V, Schweizer W, Jay M, Combellick J, Sun H, Garcia-Mantrana I, Gil Raga F, Collado MC, Rivera-Viñas JI, Campos-Rivera M, Ruiz-Calderon JF, Knight R, Dominguez-Bello MG | Med (New York, N.Y.) | 35590169 | Med | 2021 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/35590169 |
| Robustness of cancer microbiome signals over a broad range of methodological variation. | Sepich-Poore GD, McDonald D, Kopylova E, Guccione C, Zhu Q, Austin G, Carpenter C, Fraraccio S, Wandro S, Kosciolek T, Janssen S, Metcalf JL, Song SJ, Kanbar J, Miller-Montgomery S, Heaton R, Mckay R, Patel SP, Swafford AD, Korem T, Knight R | Oncogene | 38396294 | Oncogene | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/38396294 |
| Incomplete human reference genomes can drive false sex biases and expose patient-identifying information in metagenomic data. | Guccione C, Patel L, Tomofuji Y, McDonald D, Gonzalez A, Sepich-Poore GD, Sonehara K, Zakeri M, Chen Y, Dilmore AH, Damle N, Baranzini SE, Hightower G, Nakatsuji T, Gallo RL, Langmead B, Okada Y, Curtius K, Knight R | Nature communications | 39827261 | Nat Commun | 2025 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/39827261 |
| SARS-CoV-2 infectivity can be modulated through bacterial grooming of the glycocalyx. | Martino C, Kellman BP, Sandoval DR, Clausen TM, Cooper R, Benjdia A, Soualmia F, Clark AE, Garretson AF, Marotz CA, Song SJ, Wandro S, Zaramela LS, Salido RA, Zhu Q, Armingol E, Vázquez-Baeza Y, McDonald D, Sorrentino JT, Taylor B, Belda-Ferre P, Das P, Ali F, Liang C, Zhang Y, Schifanella L, Covizzi A, Lai A, Riva A, Basting C, Broedlow CA, Havulinna AS, Jousilahti P, Estaki M, Kosciolek T, Kuplicki R, Victor TA, Paulus MP, Savage KE, Benbow JL, Spielfogel ES, Anderson CAM, Martinez ME, Lacey JV Jr, Huang S, Haiminen N, Parida L, Kim H-C, Gilbert JA, Sweeney DA, Allard SM, Swafford AD, Cheng S, Inouye M, Niiranen T, Jain M, Salomaa V, Zengler K, Klatt NR, Hasty J, Berteau O, Carlin AF, Esko JD, Lewis NE, Knight R | mBio | 39998226 | mBio | 2025 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/39998226 |
| Localization atomic force microscopy. | Heath GR, Kots E, Robertson JL, Lansky S, Khelashvili G, Weinstein H, Scheuring S | Nature | 34135520 | Nature | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34135520 |
| Intrinsically disordered regions in TRPV2 mediate protein-protein interactions. | Sanganna Gari RR, Tagiltsev G, Pumroy RA, Jiang Y, Blackledge M, Moiseenkova-Bell VY, Scheuring S | Communications biology | 37736816 | Commun Biol | 2023 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/37736816 |
| A pentameric TRPV3 channel with a dilated pore. | Lansky S, Betancourt JM, Zhang J, Jiang Y, Kim ED, Paknejad N, Nimigean CM, Yuan P, Scheuring S | Nature | 37648856 | Nature | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37648856 |
| Discrimination between cyclic nucleotides in a cyclic nucleotide-gated ion channel. | Pan Y, Pohjolainen E, Schmidpeter PAM, Vaiana AC, Nimigean CM, Grubmüller H, Scheuring S | Nature structural & molecular biology | 36973509 | Nat Struct Mol Biol | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/36973509 |
| Single molecule kinetics of bacteriorhodopsin by HS-AFM. | Perrino AP, Miyagi A, Scheuring S | Nature communications | 34893646 | Nat Commun | 2021 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/34893646 |
| A concerted ATPase cycle of the protein transporter AAA-ATPase Bcs1. | Pan Y, Zhan J, Jiang Y, Xia D, Scheuring S | Nature communications | 37821516 | Nat Commun | 2023 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/37821516 |
| The cyanobacterial protein VIPP1 forms ESCRT-III-like structures on lipid bilayers. | Pan S, Gries K, Engel BD, Schroda M, Haselwandter CA, Scheuring S | Nature structural & molecular biology | 39060677 | Nat Struct Mol Biol | 2025 Mar | https://www.ncbi.nlm.nih.gov/pubmed/39060677 |
| Septin higher-order structure on yeast membranes in vitro. | Goodchild JA, Curtis BN, Pan Y, Jiang Y, Jiao F, Gladfelter AS, Scheuring S | Nature communications | 40447632 | Nat Commun | 2025 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/40447632 |
| Chemically induced protein cage assembly with programmable opening and cargo release. | Stupka I, Azuma Y, Biela AP, Imamura M, Scheuring S, Pyza E, Woźnicka O, Maskell DP, Heddle JG | Science advances | 34985943 | Sci Adv | 2022 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/34985943 |
| Structural dynamics of channels and transporters by high-speed atomic force microscopy. | Heath GR, Lin YC, Matin TR, Scheuring S | Methods in enzymology | 34059280 | Methods Enzymol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34059280 |
| Forces and energetics of the canonical tetrameric cation channel gating. | Scheuring S | Proceedings of the National Academy of Sciences of the United States of America | 37399394 | Proc Natl Acad Sci U S A | 2023 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/37399394 |
| HS-AFM single-molecule structural biology uncovers basis of transporter wanderlust kinetics. | Jiang Y, Miyagi A, Wang X, Qiu B, Boudker O, Scheuring S | Nature structural & molecular biology | 38632360 | Nat Struct Mol Biol | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38632360 |
| High-speed atomic force microscopy tracks the dynamic parts of the ribosome. | Scheuring S | Proceedings of the National Academy of Sciences of the United States of America | 33431655 | Proc Natl Acad Sci U S A | 2021 Jan 26 | https://www.ncbi.nlm.nih.gov/pubmed/33431655 |
| High-speed atomic force microscopy to study pore-forming proteins. | Jiao F, Ruan Y, Scheuring S | Methods in enzymology | 33712187 | Methods Enzymol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/33712187 |
| Real time dynamics of Gating-Related conformational changes in CorA. | Rangl M, Schmandt N, Perozo E, Scheuring S | eLife | 31774394 | Elife | 2019 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/31774394 |
| Force-induced conformational changes in PIEZO1. | Lin YC, Guo YR, Miyagi A, Levring J, MacKinnon R, Scheuring S | Nature | 31435018 | Nature | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31435018 |
| Annexin-V stabilizes membrane defects by inducing lipid phase transition. | Lin YC, Chipot C, Scheuring S | Nature communications | 31932647 | Nat Commun | 2020 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/31932647 |
| Nanodissected elastically loaded clathrin lattices relax to increased curvature. | Tagiltsev G, Haselwandter CA, Scheuring S | Science advances | 34389539 | Sci Adv | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34389539 |
| Membrane-mediated protein interactions drive membrane protein organization. | Jiang Y, Thienpont B, Sapuru V, Hite RK, Dittman JS, Sturgis JN, Scheuring S | Nature communications | 36450733 | Nat Commun | 2022 Nov 30 | https://www.ncbi.nlm.nih.gov/pubmed/36450733 |
| Advances in high-speed atomic force microscopy (HS-AFM) reveal dynamics of transmembrane channels and transporters. | Heath GR, Scheuring S | Current opinion in structural biology | 30878714 | Curr Opin Struct Biol | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30878714 |
| Nanoreporter of an Enzymatic Suicide Inactivation Pathway. | Yaari Z, Cheung JM, Baker HA, Frederiksen RS, Jena PV, Horoszko CP, Jiao F, Scheuring S, Luo M, Heller DA | Nano letters | 33119310 | Nano Lett | 2020 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/33119310 |
| Snf7 spirals sense and alter membrane curvature. | Jukic N, Perrino AP, Humbert F, Roux A, Scheuring S | Nature communications | 35449207 | Nat Commun | 2022 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/35449207 |
| Perforin-2 clockwise hand-over-hand pre-pore to pore transition mechanism. | Jiao F, Dehez F, Ni T, Yu X, Dittman JS, Gilbert R, Chipot C, Scheuring S | Nature communications | 36028507 | Nat Commun | 2022 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/36028507 |
| A structural biology compatible file format for atomic force microscopy. | Jiang Y, Wang Z, Scheuring S | Nature communications | 39955301 | Nat Commun | 2025 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/39955301 |
| Structural dynamics and permeability of the TRPV3 pentamer. | Lansky S, Wang Z, Clarke OB, Chipot C, Scheuring S | Nature communications | 40374654 | Nat Commun | 2025 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/40374654 |
| Age-associated suppression of exploratory activity during sickness is linked to meningeal lymphatic dysfunction and microglia activation. | Goldman DH, Dykstra T, Smirnov I, Blackburn SM, Da Mesquita S, Kipnis J, Herz J | Nature aging | 37065770 | Nat Aging | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37065770 |
| A novel immune modulator IM33 mediates a glia-gut-neuronal axis that controls lifespan. | Xu W, Rustenhoven J, Nelson CA, Dykstra T, Ferreiro A, Papadopoulos Z, Burnham CD, Dantas G, Fremont DH, Kipnis J | Neuron | 37582366 | Neuron | 2023 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/37582366 |
| Skull bone marrow channels as immune gateways to the central nervous system. | Mazzitelli JA, Pulous FE, Smyth LCD, Kaya Z, Rustenhoven J, Moskowitz MA, Kipnis J, Nahrendorf M | Nature neuroscience | 37996526 | Nat Neurosci | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37996526 |
| Cerebrospinal fluid regulates skull bone marrow niches via direct access through dural channels. | Mazzitelli JA, Smyth LCD, Cross KA, Dykstra T, Sun J, Du S, Mamuladze T, Smirnov I, Rustenhoven J, Kipnis J | Nature neuroscience | 35301477 | Nat Neurosci | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35301477 |
| Bypassing the blood-brain barrier. | Rustenhoven J, Kipnis J | Science (New York, N.Y.) | 31857468 | Science | 2019 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/31857468 |
| GABAergic neuronal IL-4R mediates T cell effect on memory. | Herz J, Fu Z, Kim K, Dykstra T, Wall M, Li H, Salvador AF, Zou B, Yan N, Blackburn SM, Andrews PH, Goldman DH, Papadopoulos Z, Smirnov I, Xie XS, Kipnis J | Neuron | 34793707 | Neuron | 2021 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/34793707 |
| Age-dependent immune and lymphatic responses after spinal cord injury. | Salvador AFM, Dykstra T, Rustenhoven J, Gao W, Blackburn SM, Bhasiin K, Dong MQ, Guimarães RM, Gonuguntla S, Smirnov I, Kipnis J, Herz J | Neuron | 37148871 | Neuron | 2023 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/37148871 |
| Functional characterization of the dural sinuses as a neuroimmune interface. | Rustenhoven J, Drieu A, Mamuladze T, de Lima KA, Dykstra T, Wall M, Papadopoulos Z, Kanamori M, Salvador AF, Baker W, Lemieux M, Da Mesquita S, Cugurra A, Fitzpatrick J, Sviben S, Kossina R, Bayguinov P, Townsend RR, Zhang Q, Erdmann-Gilmore P, Smirnov I, Lopes MB, Herz J, Kipnis J | Cell | 33508229 | Cell | 2021 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/33508229 |
| Skull and vertebral bone marrow are myeloid cell reservoirs for the meninges and CNS parenchyma. | Cugurra A, Mamuladze T, Rustenhoven J, Dykstra T, Beroshvili G, Greenberg ZJ, Baker W, Papadopoulos Z, Drieu A, Blackburn S, Kanamori M, Brioschi S, Herz J, Schuettpelz LG, Colonna M, Smirnov I, Kipnis J | Science (New York, N.Y.) | 34083447 | Science | 2021 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/34083447 |
| Meningeal γδ T cells regulate anxiety-like behavior via IL-17a signaling in neurons. | Alves de Lima K, Rustenhoven J, Da Mesquita S, Wall M, Salvador AF, Smirnov I, Martelossi Cebinelli G, Mamuladze T, Baker W, Papadopoulos Z, Lopes MB, Cao WS, Xie XS, Herz J, Kipnis J | Nature immunology | 32929273 | Nat Immunol | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/32929273 |
| Brain borders at the central stage of neuroimmunology. | Rustenhoven J, Kipnis J | Nature | 36517712 | Nature | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36517712 |
| Neuronal dynamics direct cerebrospinal fluid perfusion and brain clearance. | Jiang-Xie LF, Drieu A, Bhasiin K, Quintero D, Smirnov I, Kipnis J | Nature | 38418877 | Nature | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38418877 |
| Endogenous self-peptides guard immune privilege of the central nervous system. | Kim MW, Gao W, Lichti CF, Gu X, Dykstra T, Cao J, Smirnov I, Boskovic P, Kleverov D, Salvador AFM, Drieu A, Kim K, Blackburn S, Crewe C, Artyomov MN, Unanue ER, Kipnis J | Nature | 39476864 | Nature | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39476864 |
| Thalamus sends information about arousal but not valence to the amygdala. | Leppla CA, Keyes LR, Glober G, Matthews GA, Batra K, Jay M, Feng Y, Chen HS, Mills F, Delahanty J, Olson JM, Nieh EH, Namburi P, Wildes C, Wichmann R, Beyeler A, Kimchi EY, Tye KM | Psychopharmacology | 36522481 | Psychopharmacology (Berl) | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36522481 |
| Anxiety and depression: A top-down, bottom-up model of circuit function. | LeDuke DO, Borio M, Miranda R, Tye KM | Annals of the New York Academy of Sciences | 37129246 | Ann N Y Acad Sci | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37129246 |
| Cortical ensembles orchestrate social competition through hypothalamic outputs. | Padilla-Coreano N, Batra K, Patarino M, Chen Z, Rock RR, Zhang R, Hausmann SB, Weddington JC, Patel R, Zhang YE, Fang HS, Mishra S, LeDuke DO, Revanna J, Li H, Borio M, Pamintuan R, Bal A, Keyes LR, Libster A, Wichmann R, Mills F, Taschbach FH, Matthews GA, Curley JP, Fiete IR, Lu C, Tye KM | Nature | 35296862 | Nature | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35296862 |
| Reward contingency gates selective cholinergic suppression of amygdala neurons. | Kimchi EY, Burgos-Robles A, Matthews GA, Chakoma T, Patarino M, Weddington JC, Siciliano C, Yang W, Foutch S, Simons R, Fong MF, Jing M, Li Y, Polley DB, Tye KM | eLife | 38376907 | Elife | 2024 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/38376907 |
| Mixed selectivity: Cellular computations for complexity. | Tye KM, Miller EK, Taschbach FH, Benna MK, Rigotti M, Fusi S | Neuron | 38729151 | Neuron | 2024 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/38729151 |
| Predicting Future Development of Stress-Induced Anhedonia From Cortical Dynamics and Facial Expression. | Coley AA, Batra K, Delahanty JM, Keyes LR, Pamintuan R, Ramot A, Hagemann J, Lee CR, Liu V, Adivikolanu H, Cressy J, Jia C, Massa F, LeDuke D, Gabir M, Durubeh B, Linderhof L, Patel R, Wichmann R, Li H, Fischer KB, Pereira T, Tye KM | Research square | 40166035 | Res Sq | 2025 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/40166035 |
| Predicting Future Development of Stress-Induced Anhedonia From Cortical Dynamics and Facial Expression. | Coley AA, Batra K, Delahanty JM, Keyes LR, Pamintuan R, Ramot A, Hagemann J, Lee CR, Liu V, Adivikolanu H, Cressy J, Jia C, Massa F, LeDuke D, Gabir M, Durubeh B, Linderhof L, Patel R, Wichmann R, Li H, Fischer KB, Pereira T, Tye KM | bioRxiv : the preprint server for biology | 39764017 | bioRxiv | 2024 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/39764017 |
| Dynamic influences on the neural encoding of social valence. | Padilla-Coreano N, Tye KM, Zelikowsky M | Nature reviews. Neuroscience | 35831442 | Nat Rev Neurosci | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35831442 |
| Neural systems that facilitate the representation of social rank. | Dwortz MF, Curley JP, Tye KM, Padilla-Coreano N | Philosophical transactions of the Royal Society of London. Series B, Biological sciences | 35000438 | Philos Trans R Soc Lond B Biol Sci | 2022 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/35000438 |
| Neural Circuit Motifs in Valence Processing. | Tye KM | Neuron | 30359607 | Neuron | 2018 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/30359607 |
| Dopamine tunes prefrontal outputs to orchestrate aversive processing. | Weele CMV, Siciliano CA, Tye KM | Brain research | 30513287 | Brain Res | 2019 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/30513287 |
| Neural mechanisms of social homeostasis. | Matthews GA, Tye KM | Annals of the New York Academy of Sciences | 30875095 | Ann N Y Acad Sci | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30875095 |
| Social isolation recruits amygdala-cortical circuitry to escalate alcohol drinking. | Patel RR, Patarino M, Kim K, Pamintuan R, Taschbach FH, Li H, Lee CR, van Hoek A, Castro R, Cazares C, Miranda RL, Jia C, Delahanty J, Batra K, Keyes LR, Libster A, Wichmann R, Pereira TD, Benna MK, Tye KM | Research square | 38562728 | Res Sq | 2024 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/38562728 |
| Double threat in striatal dopamine signaling. | Siciliano CA, Mills F, Tye KM | Nature neuroscience | 30258236 | Nat Neurosci | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30258236 |
| Acute social isolation evokes midbrain craving responses similar to hunger. | Tomova L, Wang KL, Thompson T, Matthews GA, Takahashi A, Tye KM, Saxe R | Nature neuroscience | 33230328 | Nat Neurosci | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33230328 |
| Valence processing in the PFC: Reconciling circuit-level and systems-level views. | Coley AA, Padilla-Coreano N, Patel R, Tye KM | International review of neurobiology | 33785145 | Int Rev Neurobiol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/33785145 |
| Neurotensin orchestrates valence assignment in the amygdala. | Li H, Namburi P, Olson JM, Borio M, Lemieux ME, Beyeler A, Calhoon GG, Hitora-Imamura N, Coley AA, Libster A, Bal A, Jin X, Wang H, Jia C, Choudhury SR, Shi X, Felix-Ortiz AC, de la Fuente V, Barth VP, King HO, Izadmehr EM, Revanna JS, Batra K, Fischer KB, Keyes LR, Padilla-Coreano N, Siciliano CA, McCullough KM, Wichmann R, Ressler KJ, Fiete IR, Zhang F, Li Y, Tye KM | Nature | 35859170 | Nature | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35859170 |
| Control of innate olfactory valence by segregated cortical amygdala circuits. | Howe JR, Chan CL, Lee D, Blanquart M, Lee JH, Romero HK, Zadina AN, Lemieux ME, Mills F, Desplats PA, Tye KM, Root CM | bioRxiv : the preprint server for biology | 38979308 | bioRxiv | 2024 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/38979308 |
| The neural circuitry of social homeostasis: Consequences of acute versus chronic social isolation. | Lee CR, Chen A, Tye KM | Cell | 33691140 | Cell | 2021 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/33691140 |
| A cortical-brainstem circuit predicts and governs compulsive alcohol drinking. | Siciliano CA, Noamany H, Chang CJ, Brown AR, Chen X, Leible D, Lee JJ, Wang J, Vernon AN, Vander Weele CM, Kimchi EY, Heiman M, Tye KM | Science (New York, N.Y.) | 31754002 | Science | 2019 Nov 22 | https://www.ncbi.nlm.nih.gov/pubmed/31754002 |
| Dopamine enhances signal-to-noise ratio in cortical-brainstem encoding of aversive stimuli. | Vander Weele CM, Siciliano CA, Matthews GA, Namburi P, Izadmehr EM, Espinel IC, Nieh EH, Schut EHS, Padilla-Coreano N, Burgos-Robles A, Chang CJ, Kimchi EY, Beyeler A, Wichmann R, Wildes CP, Tye KM | Nature | 30405240 | Nature | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30405240 |
| Social Exclusion Amplifies Behavioral Responses to Physical Pain via Insular Neuromodulation. | Jia C, Tran A, Aloboudi F, Say E, Thao N, Lee CR, Batra K, Nguyen A, Bal A, Nono NN, Delahanty J, Chan MG, Keyes LR, Patel RR, Wichmann R, Taschbach F, Li Y, Benna M, Pereira TD, Li H, Tye K | bioRxiv : the preprint server for biology | 40463290 | bioRxiv | 2025 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/40463290 |
| Bacteroides thetaiotaomicron-Infecting Bacteriophage Isolates Inform Sequence-Based Host Range Predictions. | Hryckowian AJ, Merrill BD, Porter NT, Van Treuren W, Nelson EJ, Garlena RA, Russell DA, Martens EC, Sonnenburg JL | Cell host & microbe | 32652063 | Cell Host Microbe | 2020 Sep 9 | https://www.ncbi.nlm.nih.gov/pubmed/32652063 |
| The ancestral and industrialized gut microbiota and implications for human health. | Sonnenburg ED, Sonnenburg JL | Nature reviews. Microbiology | 31089293 | Nat Rev Microbiol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31089293 |
| Hadza Prevotella Require Diet-derived Microbiota Accessible Carbohydrates to Persist in Mice. | Gellman RH, Olm MR, Terrapon N, Enam F, Higginbottom SK, Sonnenburg JL, Sonnenburg ED | bioRxiv : the preprint server for biology | 36945614 | bioRxiv | 2023 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/36945614 |
| Ultra-deep Sequencing of Hadza Hunter-Gatherers Recovers Vanishing Gut Microbes. | Merrill BD, Carter MM, Olm MR, Dahan D, Tripathi S, Spencer SP, Yu B, Jain S, Neff N, Jha AR, Sonnenburg ED, Sonnenburg JL | bioRxiv : the preprint server for biology | 36238714 | bioRxiv | 2022 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/36238714 |
| Ultra-deep sequencing of Hadza hunter-gatherers recovers vanishing gut microbes. | Carter MM, Olm MR, Merrill BD, Dahan D, Tripathi S, Spencer SP, Yu FB, Jain S, Neff N, Jha AR, Sonnenburg ED, Sonnenburg JL | Cell | 37348505 | Cell | 2023 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/37348505 |
| Metagenomic Immunoglobulin Sequencing (MIG-Seq) Exposes Patterns of IgA Antibody Binding in the Healthy Human Gut Microbiome. | Olm MR, Spencer SP, Silva EL, Sonnenburg JL | bioRxiv : the preprint server for biology | 38045399 | bioRxiv | 2023 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/38045399 |
| Hadza Prevotella require diet-derived microbiota-accessible carbohydrates to persist in mice. | Gellman RH, Olm MR, Terrapon N, Enam F, Higginbottom SK, Sonnenburg JL, Sonnenburg ED | Cell reports | 38510311 | Cell Rep | 2023 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/38510311 |
| Links between environment, diet, and the hunter-gatherer microbiome. | Fragiadakis GK, Smits SA, Sonnenburg ED, Van Treuren W, Reid G, Knight R, Manjurano A, Changalucha J, Dominguez-Bello MG, Leach J, Sonnenburg JL | Gut microbes | 30118385 | Gut Microbes | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30118385 |
| Pursuing Human-Relevant Gut Microbiota-Immune Interactions. | Spencer SP, Fragiadakis GK, Sonnenburg JL | Immunity | 31433970 | Immunity | 2019 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/31433970 |
| Vulnerability of the industrialized microbiota. | Sonnenburg JL, Sonnenburg ED | Science (New York, N.Y.) | 31649168 | Science | 2019 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/31649168 |
| Robust variation in infant gut microbiome assembly across a spectrum of lifestyles. | Olm MR, Dahan D, Carter MM, Merrill BD, Yu FB, Jain S, Meng X, Tripathi S, Wastyk H, Neff N, Holmes S, Sonnenburg ED, Jha AR, Sonnenburg JL | Science (New York, N.Y.) | 35679413 | Science | 2022 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/35679413 |
| Metagenomic immunoglobulin sequencing reveals IgA coating of microbial strains in the healthy human gut. | Olm MR, Spencer SP, Takeuchi T, Silva EL, Sonnenburg JL | Nature microbiology | 39747692 | Nat Microbiol | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39747692 |
| PIEZOs mediate neuronal sensing of blood pressure and the baroreceptor reflex. | Zeng WZ, Marshall KL, Min S, Daou I, Chapleau MW, Abboud FM, Liberles SD, Patapoutian A | Science (New York, N.Y.) | 30361375 | Science | 2018 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/30361375 |
| An Airway Protection Program Revealed by Sweeping Genetic Control of Vagal Afferents. | Prescott SL, Umans BD, Williams EK, Brust RD, Liberles SD | Cell | 32259485 | Cell | 2020 Apr 30 | https://www.ncbi.nlm.nih.gov/pubmed/32259485 |
| Enteroendocrine cell lineages that differentially control feeding and gut motility. | Hayashi M, Kaye JA, Douglas ER, Joshi NR, Gribble FM, Reimann F, Liberles SD | eLife | 36810133 | Elife | 2023 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/36810133 |
| A brainstem circuit for nausea suppression. | Zhang C, Vincelette LK, Reimann F, Liberles SD | Cell reports | 35705049 | Cell Rep | 2022 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/35705049 |
| Cellular and Neural Responses to Sour Stimuli Require the Proton Channel Otop1. | Teng B, Wilson CE, Tu YH, Joshi NR, Kinnamon SC, Liman ER | Current biology : CB | 31543453 | Curr Biol | 2019 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/31543453 |
| An airway-to-brain sensory pathway mediates influenza-induced sickness. | Bin NR, Prescott SL, Horio N, Wang Y, Chiu IM, Liberles SD | Nature | 36890237 | Nature | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36890237 |
| Piezo2 senses airway stretch and mediates lung inflation-induced apnoea. | Nonomura K, Woo SH, Chang RB, Gillich A, Qiu Z, Francisco AG, Ranade SS, Liberles SD, Patapoutian A | Nature | 28002412 | Nature | 2017 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/28002412 |
| Area Postrema Cell Types that Mediate Nausea-Associated Behaviors. | Zhang C, Kaye JA, Cai Z, Wang Y, Prescott SL, Liberles SD | Neuron | 33278342 | Neuron | 2021 Feb 3 | https://www.ncbi.nlm.nih.gov/pubmed/33278342 |
| Arterial Baroreceptors Sense Blood Pressure through Decorated Aortic Claws. | Min S, Chang RB, Prescott SL, Beeler B, Joshi NR, Strochlic DE, Liberles SD | Cell reports | 31747594 | Cell Rep | 2019 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/31747594 |
| Internal senses of the vagus nerve. | Prescott SL, Liberles SD | Neuron | 35051375 | Neuron | 2022 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/35051375 |
| Neural Sensing of Organ Volume. | Umans BD, Liberles SD | Trends in neurosciences | 30143276 | Trends Neurosci | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30143276 |
| A brainstem map for visceral sensations. | Ran C, Boettcher JC, Kaye JA, Gallori CE, Liberles SD | Nature | 36045291 | Nature | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36045291 |
| A vagal reflex evoked by airway closure. | Schappe MS, Brinn PA, Joshi NR, Greenberg RS, Min S, Alabi AA, Zhang C, Liberles SD | Nature | 38448588 | Nature | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38448588 |
| Identification and treatment of heme depletion attributed to overexpression of a lineage of evolved P450 monooxygenases. | Michener JK, Nielsen J, Smolke CD | Proceedings of the National Academy of Sciences of the United States of America | 23129650 | Proc Natl Acad Sci U S A | 2012 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/23129650 |
| In Vitro Screening and in Silico Modeling of RNA-Based Gene Expression Control. | McKeague M, Wang YH, Smolke CD | ACS chemical biology | 26359915 | ACS Chem Biol | 2015 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/26359915 |
| Complete biosynthesis of opioids in yeast. | Galanie S, Thodey K, Trenchard IJ, Filsinger Interrante M, Smolke CD | Science (New York, N.Y.) | 26272907 | Science | 2015 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/26272907 |
| Protein-responsive ribozyme switches in eukaryotic cells. | Kennedy AB, Vowles JV, d'Espaux L, Smolke CD | Nucleic acids research | 25274734 | Nucleic Acids Res | 2014 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/25274734 |
| A system for multilocus chromosomal integration and transformation-free selection marker rescue. | Siddiqui MS, Choksi A, Smolke CD | FEMS yeast research | 25226817 | FEMS Yeast Res | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25226817 |
| Realizing the potential of synthetic biology. | Church GM, Elowitz MB, Smolke CD, Voigt CA, Weiss R | Nature reviews. Molecular cell biology | 24622617 | Nat Rev Mol Cell Biol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24622617 |
| A microbial biomanufacturing platform for natural and semisynthetic opioids. | Thodey K, Galanie S, Smolke CD | Nature chemical biology | 25151135 | Nat Chem Biol | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25151135 |
| De novo production of the key branch point benzylisoquinoline alkaloid reticuline in yeast. | Trenchard IJ, Siddiqui MS, Thodey K, Smolke CD | Metabolic engineering | 26166409 | Metab Eng | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26166409 |
| Optimization of yeast-based production of medicinal protoberberine alkaloids. | Galanie S, Smolke CD | Microbial cell factories | 26376732 | Microb Cell Fact | 2015 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/26376732 |
| Opportunities in the design and application of RNA for gene expression control. | McKeague M, Wong RS, Smolke CD | Nucleic acids research | 26969733 | Nucleic Acids Res | 2016 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/26969733 |
| Elucidation of tropane alkaloid biosynthesis in Erythroxylum coca using a microbial pathway discovery platform. | Chavez BG, Srinivasan P, Glockzin K, Kim N, Montero Estrada O, Jirschitzka J, Rowden G, Shao J, Meinhardt L, Smolke CD, D'Auria JC | Proceedings of the National Academy of Sciences of the United States of America | 36442128 | Proc Natl Acad Sci U S A | 2022 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/36442128 |
| Complete biosynthesis of noscapine and halogenated alkaloids in yeast. | Li Y, Li S, Thodey K, Trenchard I, Cravens A, Smolke CD | Proceedings of the National Academy of Sciences of the United States of America | 29610307 | Proc Natl Acad Sci U S A | 2018 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/29610307 |
| Engineering strategies for the fermentative production of plant alkaloids in yeast. | Trenchard IJ, Smolke CD | Metabolic engineering | 25981946 | Metab Eng | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25981946 |
| Design and Construction of Generalizable RNA-Protein Hybrid Controllers by Level-Matched Genetic Signal Amplification. | Wang YH, McKeague M, Hsu TM, Smolke CD | Cell systems | 27840078 | Cell Syst | 2016 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/27840078 |
| Kinetic and equilibrium binding characterization of aptamers to small molecules using a label-free, sensitive, and scalable platform. | Chang AL, McKeague M, Liang JC, Smolke CD | Analytical chemistry | 24548121 | Anal Chem | 2014 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/24548121 |
| Synthetic RNA switches for yeast metabolic engineering: screening recombinant enzyme libraries. | Michener JK, Smolke CD | Methods in molecular biology (Clifton, N.J.) | 24744030 | Methods Mol Biol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24744030 |
| Synthetic biology: advancing the design of diverse genetic systems. | Wang YH, Wei KY, Smolke CD | Annual review of chemical and biomolecular engineering | 23413816 | Annu Rev Chem Biomol Eng | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23413816 |
| Engineering biosynthesis of the anticancer alkaloid noscapine in yeast. | Li Y, Smolke CD | Nature communications | 27378283 | Nat Commun | 2016 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/27378283 |
| Polymerase-guided base editing enables in vivo mutagenesis and rapid protein engineering. | Cravens A, Jamil OK, Kong D, Sockolosky JT, Smolke CD | Nature communications | 33707425 | Nat Commun | 2021 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/33707425 |
| Biosynthesis of medicinal tropane alkaloids in yeast. | Srinivasan P, Smolke CD | Nature | 32879484 | Nature | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32879484 |
| Synthetic biology strategies for microbial biosynthesis of plant natural products. | Cravens A, Payne J, Smolke CD | Nature communications | 31086174 | Nat Commun | 2019 May 13 | https://www.ncbi.nlm.nih.gov/pubmed/31086174 |
| Complete biosynthesis of the bisbenzylisoquinoline alkaloids guattegaumerine and berbamunine in yeast. | Payne JT, Valentic TR, Smolke CD | Proceedings of the National Academy of Sciences of the United States of America | 34903659 | Proc Natl Acad Sci U S A | 2021 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/34903659 |
| Engineering a microbial platform for de novo biosynthesis of diverse methylxanthines. | McKeague M, Wang YH, Cravens A, Win MN, Smolke CD | Metabolic engineering | 27519552 | Metab Eng | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27519552 |
| Molecular tools for chemical biotechnology. | Galanie S, Siddiqui MS, Smolke CD | Current opinion in biotechnology | 23528237 | Curr Opin Biotechnol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23528237 |
| A computational workflow for the expansion of heterologous biosynthetic pathways to natural product derivatives. | Hafner J, Payne J, MohammadiPeyhani H, Hatzimanikatis V, Smolke C | Nature communications | 33741955 | Nat Commun | 2021 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/33741955 |
| Facile characterization of aptamer kinetic and equilibrium binding properties using surface plasmon resonance. | Chang AL, McKeague M, Smolke CD | Methods in enzymology | 25432760 | Methods Enzymol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25432760 |
| High-throughput cellular RNA device engineering. | Townshend B, Kennedy AB, Xiang JS, Smolke CD | Nature methods | 26258292 | Nat Methods | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26258292 |
| Engineering cellular metabolite transport for biosynthesis of computationally predicted tropane alkaloid derivatives in yeast. | Srinivasan P, Smolke CD | Proceedings of the National Academy of Sciences of the United States of America | 34140414 | Proc Natl Acad Sci U S A | 2021 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/34140414 |
| Defining Resistance and Tolerance to Cancer. | Dillman AR, Schneider DS | Cell reports | 26565901 | Cell Rep | 2015 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/26565901 |
| Tracking Resilience to Infections by Mapping Disease Space. | Torres BY, Oliveira JH, Thomas Tate A, Rath P, Cumnock K, Schneider DS | PLoS biology | 27088359 | PLoS Biol | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27088359 |
| Listeria monocytogenes infection causes metabolic shifts in Drosophila melanogaster. | Chambers MC, Song KH, Schneider DS | PloS one | 23272066 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23272066 |
| Predicting position along a looping immune response trajectory. | Rath P, Allen JA, Schneider DS | PloS one | 30296270 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30296270 |
| Drosophila melanogaster Natural Variation Affects Growth Dynamics of Infecting Listeria monocytogenes. | Hotson AG, Schneider DS | G3 (Bethesda, Md.) | 26438294 | G3 (Bethesda) | 2015 Oct 4 | https://www.ncbi.nlm.nih.gov/pubmed/26438294 |
| Metabolic profiling during malaria reveals the role of the aryl hydrocarbon receptor in regulating kidney injury. | Lissner MM, Cumnock K, Davis NM, Vilches-Moure JG, Basak P, Navarrete DJ, Allen JA, Schneider D | eLife | 33021470 | Elife | 2020 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/33021470 |
| How Many Parameters Does It Take to Describe Disease Tolerance? | Louie A, Song KH, Hotson A, Thomas Tate A, Schneider DS | PLoS biology | 27088212 | PLoS Biol | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27088212 |
| Host Energy Source Is Important for Disease Tolerance to Malaria. | Cumnock K, Gupta AS, Lissner M, Chevee V, Davis NM, Schneider DS | Current biology : CB | 29754902 | Curr Biol | 2018 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/29754902 |
| Interleukin-36γ-producing macrophages drive IL-17-mediated fibrosis. | Sommerfeld SD, Cherry C, Schwab RM, Chung L, Maestas DR Jr, Laffont P, Stein JE, Tam A, Ganguly S, Housseau F, Taube JM, Pardoll DM, Cahan P, Elisseeff JH | Science immunology | 31604843 | Sci Immunol | 2019 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/31604843 |
| Interleukin 17 and senescent cells regulate the foreign body response to synthetic material implants in mice and humans. | Chung L, Maestas DR Jr, Lebid A, Mageau A, Rosson GD, Wu X, Wolf MT, Tam AJ, Vanderzee I, Wang X, Andorko JI, Zhang H, Narain R, Sadtler K, Fan H, Čiháková D, Le Saux CJ, Housseau F, Pardoll DM, Elisseeff JH | Science translational medicine | 32295900 | Sci Transl Med | 2020 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/32295900 |
| Design of cell-type-specific hyperstable IL-4 mimetics via modular de novo scaffolds. | Yang H, Ulge UY, Quijano-Rubio A, Bernstein ZJ, Maestas DR, Chun JH, Wang W, Lin JX, Jude KM, Singh S, Orcutt-Jahns BT, Li P, Mou J, Chung L, Kuo YH, Ali YH, Meyer AS, Grayson WL, Heller NM, Garcia KC, Leonard WJ, Silva DA, Elisseeff JH, Baker D, Spangler JB | Nature chemical biology | 37024727 | Nat Chem Biol | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37024727 |
| Immune and Genome Engineering as the Future of Transplantable Tissue. | Elisseeff J, Badylak SF, Boeke JD | The New England journal of medicine | 34936741 | N Engl J Med | 2021 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/34936741 |
| Autologous Protein Solution processing alters lymphoid and myeloid cell populations and modulates gene expression dependent on cell type. | Peña AN, Sommerfeld SD, Anderson AE, Han J, Maestas DR Jr, Mejias JC, Woodell-May J, King W, Ganguly S, Elisseeff JH | Arthritis research & therapy | 36096945 | Arthritis Res Ther | 2022 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/36096945 |
| Senescent cells in tissue engineering. | Chin AF, Elisseeff JH | Current opinion in biotechnology | 35660479 | Curr Opin Biotechnol | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35660479 |
| Transfer learning in a biomaterial fibrosis model identifies in vivo senescence heterogeneity and contributions to vascularization and matrix production across species and diverse pathologies. | Cherry C, Andorko JI, Krishnan K, Mejías JC, Nguyen HH, Stivers KB, Gray-Gaillard EF, Ruta A, Han J, Hamada N, Hamada M, Sturmlechner I, Trewartha S, Michel JH, Davenport Huyer L, Wolf MT, Tam AJ, Peña AN, Keerthivasan S, Le Saux CJ, Fertig EJ, Baker DJ, Housseau F, van Deursen JM, Pardoll DM, Elisseeff JH | GeroScience | 37079217 | Geroscience | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37079217 |
| Single-cell transcriptomic analysis of skeletal muscle regeneration across mouse lifespan identifies altered stem cell states associated with senescence. | Walter LD, Orton JL, Hannah Fong EH, Maymi VI, Rudd BD, Elisseeff JH, Cosgrove BD | bioRxiv : the preprint server for biology | 37292698 | bioRxiv | 2023 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/37292698 |
| Transcriptomic analysis of skeletal muscle regeneration across mouse lifespan identifies altered stem cell states. | Walter LD, Orton JL, Ntekas I, Fong EHH, Maymi VI, Rudd BD, De Vlaminck I, Elisseeff JH, Cosgrove BD | Nature aging | 39578558 | Nat Aging | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39578558 |
| Murine gut microbiota dysbiosis via enteric infection modulates the foreign body response to a distal biomaterial implant. | Yang B, Rutkowski N, Ruta A, Gray-Gaillard E, Maestas DR Jr, Kelly SH, Krishnan K, Wu X, Wu S, Chen A, Mejías JC, Hooks JST, Vanderzee I, Mensah P, Celik N, Eric M, Abraham P, Tam A, Housseau F, Pardoll DM, Sears CL, Elisseeff JH | Proceedings of the National Academy of Sciences of the United States of America | 40354538 | Proc Natl Acad Sci U S A | 2025 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/40354538 |
| IL-17 and immunologically induced senescence regulate response to injury in osteoarthritis. | Faust HJ, Zhang H, Han J, Wolf MT, Jeon OH, Sadtler K, Peña AN, Chung L, Maestas DR Jr, Tam AJ, Pardoll DM, Campisi J, Housseau F, Zhou D, Bingham CO 3rd, Elisseeff JH | The Journal of clinical investigation | 32955487 | J Clin Invest | 2020 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/32955487 |
| The Immune System and Its Contribution to Variability in Regenerative Medicine. | Moore EM, Maestas DR Jr, Comeau HY, Elisseeff JH | Tissue engineering. Part B, Reviews | 32635878 | Tissue Eng Part B Rev | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32635878 |
| Computational reconstruction of the signalling networks surrounding implanted biomaterials from single-cell transcriptomics. | Cherry C, Maestas DR, Han J, Andorko JI, Cahan P, Fertig EJ, Garmire LX, Elisseeff JH | Nature biomedical engineering | 34341534 | Nat Biomed Eng | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34341534 |
| Helminth egg derivatives as proregenerative immunotherapies. | Maestas DR Jr, Chung L, Han J, Wang X, Sommerfeld SD, Kelly SH, Moore E, Nguyen HH, Mejías JC, Peña AN, Zhang H, Hooks JST, Chin AF, Andorko JI, Berlinicke CA, Krishnan K, Choi Y, Anderson AE, Mahatme R, Mejia C, Eric M, Woo J, Ganguly S, Zack DJ, Zhao L, Pearce EJ, Housseau F, Pardoll DM, Elisseeff JH | Proceedings of the National Academy of Sciences of the United States of America | 36780522 | Proc Natl Acad Sci U S A | 2023 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/36780522 |
| Sirolimus-eluting airway stent reduces profibrotic Th17 cells and inhibits laryngotracheal stenosis. | Motz KM, Lina IA, Samad I, Murphy MK, Duvvuri M, Davis RJ, Gelbard A, Chung L, Chan-Li Y, Collins S, Powell JD, Elisseeff JH, Horton MR, Hillel AT | JCI insight | 37159282 | JCI Insight | 2023 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/37159282 |
| Biomaterials direct functional B cell response in a material-specific manner. | Moore EM, Maestas DR Jr, Cherry CC, Garcia JA, Comeau HY, Davenport Huyer L, Kelly SH, Peña AN, Blosser RL, Rosson GD, Elisseeff JH | Science advances | 34851674 | Sci Adv | 2021 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/34851674 |
| Biomaterials-based immunomodulation enhances survival of murine vascularized composite allografts. | Sommerfeld SD, Zhou X, Mejías JC, Oh BC, Maestas DR Jr, Furtmüller GJ, Laffont PA, Elisseeff JH, Brandacher G | Biomaterials science | 37129566 | Biomater Sci | 2023 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/37129566 |
| Immunoengineering Biomaterials for Musculoskeletal Tissue Repair across Lifespan. | Han J, Rindone AN, Elisseeff JH | Advanced materials (Deerfield Beach, Fla.) | 38416061 | Adv Mater | 2024 Jul | https://www.ncbi.nlm.nih.gov/pubmed/38416061 |
| POLYMERIC BIOMATERIALS FOR SCAFFOLD-BASED BONE REGENERATIVE ENGINEERING. | Ogueri KS, Jafari T, Escobar Ivirico JL, Laurencin CT | Regenerative engineering and translational medicine | 31423461 | Regen Eng Transl Med | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31423461 |
| Fabrication and characterization of mechanically competent 3D printed polycaprolactone-reduced graphene oxide scaffolds. | Seyedsalehi A, Daneshmandi L, Barajaa M, Riordan J, Laurencin CT | Scientific reports | 33335152 | Sci Rep | 2020 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/33335152 |
| Nanofiber Technology for Regenerative Engineering. | Ogueri KS, Laurencin CT | ACS nano | 32678581 | ACS Nano | 2020 Aug 25 | https://www.ncbi.nlm.nih.gov/pubmed/32678581 |
| Regulation of regeneration by Heparan Sulfate Proteoglycans in the Extracellular Matrix. | Gardiner DM | Regenerative engineering and translational medicine | 29242821 | Regen Eng Transl Med | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/29242821 |
| Kinetic degradation and biocompatibility evaluation of polycaprolactone-based biologics delivery matrices for regenerative engineering of the rotator cuff. | Prabhath A, Vernekar VN, Vasu V, Badon M, Avochinou JE, Asandei AD, Kumbar SG, Weber E, Laurencin CT | Journal of biomedical materials research. Part A | 33974735 | J Biomed Mater Res A | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33974735 |
| Biomedical applications of polyphosphazenes. | Ogueri KS, Ogueri KS, Ude CC, Allcock HR, Laurencin CT | Medical devices & sensors | 33889811 | Med Devices Sens | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33889811 |
| Ligament Regenerative Engineering: Braiding Scalable and Tunable Bioengineered Ligaments Using a Bench-Top Braiding Machine. | Mengsteab PY, Freeman J, Barajaa MA, Nair LS, Laurencin CT | Regenerative engineering and translational medicine | 35005216 | Regen Eng Transl Med | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35005216 |
| Injectable amnion hydrogel-mediated delivery of adipose-derived stem cells for osteoarthritis treatment. | Bhattacharjee M, Escobar Ivirico JL, Kan HM, Shah S, Otsuka T, Bordett R, Barajaa M, Nagiah N, Pandey R, Nair LS, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 35046053 | Proc Natl Acad Sci U S A | 2022 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/35046053 |
| Regenerative Engineering for Knee Osteoarthritis Treatment: Biomaterials and Cell-Based Technologies. | Escobar Ivirico JL, Bhattacharjee M, Kuyinu E, Nair LS, Laurencin CT | Engineering (Beijing, China) | 35392109 | Engineering (Beijing) | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35392109 |
| Overexpression of NDST1 Attenuates Fibrotic Response in Murine Adipose-Derived Stem Cells. | Otsuka T, Kan HM, Mason TD, Nair LS, Laurencin CT | Stem cells and development | 35920108 | Stem Cells Dev | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35920108 |
| Engineered stem cell niche matrices for rotator cuff tendon regenerative engineering. | Peach MS, Ramos DM, James R, Morozowich NL, Mazzocca AD, Doty SB, Allcock HR, Kumbar SG, Laurencin CT | PloS one | 28369135 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28369135 |
| Evaluation of a bioengineered ACL matrix's osteointegration with BMP-2 supplementation. | Mengsteab PY, Conroy P, Badon M, Otsuka T, Kan HM, Vella AT, Nair LS, Laurencin CT | PloS one | 31910231 | PLoS One | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/31910231 |
| The past, present and future of ligament regenerative engineering. | Mengsteab PY, Nair LS, Laurencin CT | Regenerative medicine | 27879170 | Regen Med | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27879170 |
| Regenerative engineering: a review of recent advances and future directions. | Esdaille CJ, Washington KS, Laurencin CT | Regenerative medicine | 34030463 | Regen Med | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/34030463 |
| Enhancing the Surface Properties of a Bioengineered Anterior Cruciate Ligament Matrix for Use with Point-of-Care Stem Cell Therapy. | Yu X, Mengsteab PY, Narayanan G, Nair LS, Laurencin CT | Engineering (Beijing, China) | 34136308 | Engineering (Beijing) | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/34136308 |
| In Vivo Evaluation of the Regenerative Capability of Glycylglycine Ethyl Ester-Substituted Polyphosphazene and Poly(lactic-co-glycolic acid) Blends: A Rabbit Critical-Sized Bone Defect Model. | Ogueri KS, Ogueri KS, McClinton A, Kan HM, Ude CC, Barajaa MA, Allcock HR, Laurencin CT | ACS biomaterials science & engineering | 33792283 | ACS Biomater Sci Eng | 2021 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/33792283 |
| Graphene-Based Biomaterials for Bone Regenerative Engineering: A Comprehensive Review of the Field and Considerations Regarding Biocompatibility and Biodegradation. | Daneshmandi L, Barajaa M, Tahmasbi Rad A, Sydlik SA, Laurencin CT | Advanced healthcare materials | 33103370 | Adv Healthc Mater | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33103370 |
| Biodegradable Polyphosphazene-Based Blends for Regenerative Engineering. | Ogueri KS, Escobar Ivirico JL, Nair LS, Allcock HR, Laurencin CT | Regenerative engineering and translational medicine | 28596987 | Regen Eng Transl Med | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28596987 |
| Harnessing cAMP signaling in musculoskeletal regenerative engineering. | Ifegwu OC, Awale G, Rajpura K, Lo KW, Laurencin CT | Drug discovery today | 28359841 | Drug Discov Today | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28359841 |
| The Axolotl Limb Regeneration Model as a Discovery Tool for Engineering the Stem Cell Niche. | Seyedhassantehrani N, Otsuka T, Singh S, Gardiner DM | Current stem cell reports | 29230380 | Curr Stem Cell Rep | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/29230380 |
| Regenerative Engineering of Cartilage Using Adipose-Derived Stem Cells. | Kasir R, Vernekar VN, Laurencin CT | Regenerative engineering and translational medicine | 26998511 | Regen Eng Transl Med | 2015 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/26998511 |
| Bioinspired Scaffold Designs for Regenerating Musculoskeletal Tissue Interfaces. | Barajaa MA, Nair LS, Laurencin CT | Regenerative engineering and translational medicine | 33344758 | Regen Eng Transl Med | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33344758 |
| Preparation and characterization of amnion hydrogel and its synergistic effect with adipose derived stem cells towards IL1β activated chondrocytes. | Bhattacharjee M, Ivirico JLE, Kan HM, Bordett R, Pandey R, Otsuka T, Nair LS, Laurencin CT | Scientific reports | 33127964 | Sci Rep | 2020 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/33127964 |
| Regenerative Engineering of the Rotator Cuff of the Shoulder. | Narayanan G, Nair LS, Laurencin CT | ACS biomaterials science & engineering | 33418763 | ACS Biomater Sci Eng | 2018 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/33418763 |
| Biomimetic electroconductive nanofibrous matrices for skeletal muscle regenerative engineering. | Tang X, Saveh-Shemshaki N, Kan HM, Khan Y, Laurencin CT | Regenerative engineering and translational medicine | 33426269 | Regen Eng Transl Med | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33426269 |
| Control of mesenchymal cell fate via application of FGF-8b in vitro. | Otsuka T, Mengsteab PY, Laurencin CT | Stem cell research | 33445073 | Stem Cell Res | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33445073 |
| Addressing Justified Vaccine Hesitancy in the Black Community. | Laurencin CT | Journal of racial and ethnic health disparities | 33783755 | J Racial Ethn Health Disparities | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33783755 |
| A Regenerative Polymer Blend Composed of Glycylglycine ethyl ester-substituted Polyphosphazene and Poly (lactic-co-glycolic acid). | Ogueri KS, Ogueri KS, Allcock HR, Laurencin CT | ACS applied polymer materials | 32699836 | ACS Appl Polym Mater | 2020 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/32699836 |
| Development of Tripolymeric Triaxial Electrospun Fibrous Matrices for Dual Drug Delivery Applications. | Nagiah N, Murdock CJ, Bhattacharjee M, Nair L, Laurencin CT | Scientific reports | 31953439 | Sci Rep | 2020 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/31953439 |
| Robust phenotypic maintenance of limb cells during heterogeneous culture in a physiologically relevant polymeric-based constructed graft system. | Barajaa MA, Nair LS, Laurencin CT | Scientific reports | 32678185 | Sci Rep | 2020 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/32678185 |
| The synthetic artificial stem cell (SASC): Shifting the paradigm of cell therapy in regenerative engineering. | Shah S, Esdaille CJ, Bhattacharjee M, Kan HM, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 34987101 | Proc Natl Acad Sci U S A | 2022 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/34987101 |
| The Role of Nanomaterials and Biological Agents on Rotator Cuff Regeneration. | Washington KS, Shemshaki NS, Laurencin CT | Regenerative engineering and translational medicine | 35005215 | Regen Eng Transl Med | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35005215 |
| Inductive Materials for Regenerative Engineering. | Hosseini FS, Nair LS, Laurencin CT | Journal of dental research | 33906507 | J Dent Res | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/33906507 |
| The Treatment of Muscle Atrophy after Rotator Cuff Tears Using Electroconductive Nanofibrous Matrices. | Tang X, Shemshaki NS, Vernekar VN, Prabhath A, Kuyinu E, Kan HM, Barajaa M, Khan Y, Laurencin CT | Regenerative engineering and translational medicine | 33816776 | Regen Eng Transl Med | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33816776 |
| Hyaluronic acid-British anti-Lewisite as a safer chelation therapy for the treatment of arthroplasty-related metallosis. | Ude CC, Schmidt SJ, Laurencin S, Shah S, Esdaille J, Kan HM, Holt BD, Arnold AM, Wolf ME, Nair LS, Sydlik SA, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 37903261 | Proc Natl Acad Sci U S A | 2023 Nov 7 | https://www.ncbi.nlm.nih.gov/pubmed/37903261 |
| Fibroblast growth factor 8b (FGF-8b) enhances myogenesis and inhibits adipogenesis in rotator cuff muscle cell populations in vitro. | Otsuka T, Kan HM, Mengsteab PY, Tyson B, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 38147545 | Proc Natl Acad Sci U S A | 2024 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/38147545 |
| Ultra-low binder content 3D printed calcium phosphate graphene scaffolds as resorbable, osteoinductive matrices that support bone formation in vivo. | Daneshmandi L, Holt BD, Arnold AM, Laurencin CT, Sydlik SA | Scientific reports | 35484292 | Sci Rep | 2022 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/35484292 |
| Muscle degeneration in chronic massive rotator cuff tears of the shoulder: Addressing the real problem using a graphene matrix. | Saveh Shemshaki N, Kan HM, Barajaa M, Otsuka T, Lebaschi A, Mishra N, Nair LS, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 35939692 | Proc Natl Acad Sci U S A | 2022 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/35939692 |
| Stromal Vascular Fraction for Osteoarthritis of the Knee Regenerative Engineering. | Ude CC, Shah S, Ogueri KS, Nair LS, Laurencin CT | Regenerative engineering and translational medicine | 35958164 | Regen Eng Transl Med | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35958164 |
| Corrosion of Metals During Use in Arthroplasty. | Ude CC, Dzidotor GK, Iloeje K, Nair LS, Laurencin CT | ACS applied bio materials | 37261398 | ACS Appl Bio Mater | 2023 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/37261398 |
| Nanofiber technology: its transformative role in nanomedicine. | James R, Laurencin CT | Nanomedicine (London, England) | 27246812 | Nanomedicine (Lond) | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27246812 |
| The Quest toward limb regeneration: a regenerative engineering approach. | Laurencin CT, Nair LS | Regenerative biomaterials | 27047679 | Regen Biomater | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27047679 |
| Animal models of osteoarthritis: classification, update, and measurement of outcomes. | Kuyinu EL, Narayanan G, Nair LS, Laurencin CT | Journal of orthopaedic surgery and research | 26837951 | J Orthop Surg Res | 2016 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/26837951 |
| An American Crisis: the Lack of Black Men in Medicine. | Laurencin CT, Murray M | Journal of racial and ethnic health disparities | 28534304 | J Racial Ethn Health Disparities | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28534304 |
| Microsphere-Based Scaffolds in Regenerative Engineering. | Gupta V, Khan Y, Berkland CJ, Laurencin CT, Detamore MS | Annual review of biomedical engineering | 28633566 | Annu Rev Biomed Eng | 2017 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/28633566 |
| Synthesis, Physicochemical Analysis, and Side Group Optimization of Degradable Dipeptide-Based Polyphosphazenes as Potential Regenerative Biomaterials. | Ogueri KS, Escobar Ivirico JL, Li Z, Blumenfield RH, Allcock HR, Laurencin CT | ACS applied polymer materials | 32699835 | ACS Appl Polym Mater | 2019 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/32699835 |
| A Pandemic on a Pandemic: Racism and COVID-19 in Blacks. | Laurencin CT, Walker JM | Cell systems | 32702320 | Cell Syst | 2020 Jul 22 | https://www.ncbi.nlm.nih.gov/pubmed/32702320 |
| Spatial alignment of 3D printed scaffolds modulates genotypic expression in pre-osteoblasts. | Nagiah N, Bhattacharjee M, Murdock CJ, Kan HM, Barajaa M, Laurencin CT | Materials letters | 32773913 | Mater Lett | 2020 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/32773913 |
| Identification of Heparan-Sulfate Rich Cells in the Loose Connective Tissues of the Axolotl (Ambystoma mexicanum) with the Potential to Mediate Growth Factor Signaling during Regeneration. | Otsuka T, Phan AQ, Laurencin CT, Esko JD, Bryant SV, Gardiner DM | Regenerative engineering and translational medicine | 33748405 | Regen Eng Transl Med | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33748405 |
| Poly (lactic acid)-based biomaterials for orthopaedic regenerative engineering. | Narayanan G, Vernekar VN, Kuyinu EL, Laurencin CT | Advanced drug delivery reviews | 27125191 | Adv Drug Deliv Rev | 2016 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/27125191 |
| REGENERATIVE ENGINEERING: APPROACHES TO LIMB REGENERATION AND OTHER GRAND CHALLENGES. | Laurencin CT, Nair LS | Regenerative engineering and translational medicine | 26985451 | Regen Eng Transl Med | 2015 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/26985451 |
| Growth factor delivery strategies for rotator cuff repair and regeneration. | Prabhath A, Vernekar VN, Sanchez E, Laurencin CT | International journal of pharmaceutics | 29317260 | Int J Pharm | 2018 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/29317260 |
| Regenerative Engineering and Bionic Limbs. | James R, Laurencin CT | Rare metals | 25983525 | Rare Metals | 2015 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/25983525 |
| Generational Biodegradable and Regenerative Polyphosphazene Polymers and their Blends with Poly (lactic-co-glycolic acid). | Ogueri KS, Allcock HR, Laurencin CT | Progress in polymer science | 31551636 | Prog Polym Sci | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31551636 |
| Phosphate graphene as an intrinsically osteoinductive scaffold for stem cell-driven bone regeneration. | Arnold AM, Holt BD, Daneshmandi L, Laurencin CT, Sydlik SA | Proceedings of the National Academy of Sciences of the United States of America | 30796184 | Proc Natl Acad Sci U S A | 2019 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/30796184 |
| Nail matrix regenerative engineering: in vitro evaluation of poly(lactide-co-glycolide)/gelatin fibrous substrates. | Montgomery AB, McClinton A, Nair L, Laurencin CT | Journal of biomedical materials research. Part A | 31981298 | J Biomed Mater Res A | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/31981298 |
| Emergence of the Stem Cell Secretome in Regenerative Engineering. | Daneshmandi L, Shah S, Jafari T, Bhattacharjee M, Momah D, Saveh-Shemshaki N, Lo KW, Laurencin CT | Trends in biotechnology | 32622558 | Trends Biotechnol | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/32622558 |
| Regenerative Cell-Based Therapies: Cutting Edge, Bleeding Edge, and Off the Edge. | Laurencin CT, McClinton A | Regenerative engineering and translational medicine | 33344756 | Regen Eng Transl Med | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33344756 |
| Mechanically superior matrices promote osteointegration and regeneration of anterior cruciate ligament tissue in rabbits. | Mengsteab PY, Otsuka T, McClinton A, Shemshaki NS, Shah S, Kan HM, Obopilwe E, Vella AT, Nair LS, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 33144508 | Proc Natl Acad Sci U S A | 2020 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/33144508 |
| Racial Profiling Is a Public Health and Health Disparities Issue. | Laurencin CT, Walker JM | Journal of racial and ethnic health disparities | 32253746 | J Racial Ethn Health Disparities | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32253746 |
| Regenerative engineered vascularized bone mediated by calcium peroxide. | Daneshmandi L, Laurencin CT | Journal of biomedical materials research. Part A | 31925886 | J Biomed Mater Res A | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/31925886 |
| Polyphosphazene polymers: The next generation of biomaterials for regenerative engineering and therapeutic drug delivery. | Ogueri KS, Ogueri KS, Allcock HR, Laurencin CT | Journal of vacuum science and technology. B, Nanotechnology & microelectronics : materials, processing, measurement, & phenomena : JVST B | 32309041 | J Vac Sci Technol B Nanotechnol Microelectron | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32309041 |
| Nanofiber/Microsphere Hybrid Matrices In Vivo for Bone Regenerative Engineering: A Preliminary Report. | Nelson C, Khan Y, Laurencin CT | Regenerative engineering and translational medicine | 30687776 | Regen Eng Transl Med | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30687776 |
| The Mechanism of Metallosis After Total Hip Arthroplasty. | Ude CC, Esdaille CJ, Ogueri KS, Ho-Man K, Laurencin SJ, Nair LS, Laurencin CT | Regenerative engineering and translational medicine | 35530571 | Regen Eng Transl Med | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35530571 |
| Skeletal Muscle Regenerative Engineering. | Tang X, Daneshmandi L, Awale G, Nair LS, Laurencin CT | Regenerative engineering and translational medicine | 33778155 | Regen Eng Transl Med | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/33778155 |
| Efficacy of a Novel Electroconductive Matrix To Treat Muscle Atrophy and Fat Accumulation in Chronic Massive Rotator Cuff Tears of the Shoulder. | Shemshaki NS, Kan HM, Barajaa MA, Lebaschi A, Otsuka T, Mishra N, Nair LS, Laurencin CT | ACS biomaterials science & engineering | 37769114 | ACS Biomater Sci Eng | 2023 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/37769114 |
| Regenerative Engineering Animal Models for Knee Osteoarthritis. | Esdaille CJ, Ude CC, Laurencin CT | Regenerative engineering and translational medicine | 35958163 | Regen Eng Transl Med | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35958163 |
| Regenerative engineering of long bones using the small molecule forskolin. | Awale GM, Barajaa MA, Kan HM, Seyedsalehi A, Nam GH, Hosseini FS, Ude CC, Schmidt TA, Lo KW, Laurencin CT | Proceedings of the National Academy of Sciences of the United States of America | 37216527 | Proc Natl Acad Sci U S A | 2023 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/37216527 |
| Salmonella require the fatty acid regulator PPARδ for the establishment of a metabolic environment essential for long-term persistence. | Eisele NA, Ruby T, Jacobson A, Manzanillo PS, Cox JS, Lam L, Mukundan L, Chawla A, Monack DM | Cell host & microbe | 23954156 | Cell Host Microbe | 2013 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/23954156 |
| Signaling by IL-6 promotes alternative activation of macrophages to limit endotoxemia and obesity-associated resistance to insulin. | Mauer J, Chaurasia B, Goldau J, Vogt MC, Ruud J, Nguyen KD, Theurich S, Hausen AC, Schmitz J, Brönneke HS, Estevez E, Allen TL, Mesaros A, Partridge L, Febbraio MA, Chawla A, Wunderlich FT, Brüning JC | Nature immunology | 24681566 | Nat Immunol | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24681566 |
| Human CD68 promoter GFP transgenic mice allow analysis of monocyte to macrophage differentiation in vivo. | Iqbal AJ, McNeill E, Kapellos TS, Regan-Komito D, Norman S, Burd S, Smart N, Machemer DE, Stylianou E, McShane H, Channon KM, Chawla A, Greaves DR | Blood | 25030063 | Blood | 2014 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/25030063 |
| Activated type 2 innate lymphoid cells regulate beige fat biogenesis. | Lee MW, Odegaard JI, Mukundan L, Qiu Y, Molofsky AB, Nussbaum JC, Yun K, Locksley RM, Chawla A | Cell | 25543153 | Cell | 2015 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/25543153 |
| Thermoneutral Housing Accelerates Metabolic Inflammation to Potentiate Atherosclerosis but Not Insulin Resistance. | Tian XY, Ganeshan K, Hong C, Nguyen KD, Qiu Y, Kim J, Tangirala RK, Tontonoz P, Chawla A | Cell metabolism | 26549485 | Cell Metab | 2016 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/26549485 |
| Tissue Immunometabolism: Development, Physiology, and Pathobiology. | Man K, Kutyavin VI, Chawla A | Cell metabolism | 27693378 | Cell Metab | 2017 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/27693378 |
| Circadian gene Bmal1 regulates diurnal oscillations of Ly6C(hi) inflammatory monocytes. | Nguyen KD, Fentress SJ, Qiu Y, Yun K, Cox JS, Chawla A | Science (New York, N.Y.) | 23970558 | Science | 2013 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/23970558 |
| Type 2 responses at the interface between immunity and fat metabolism. | Odegaard JI, Chawla A | Current opinion in immunology | 26204571 | Curr Opin Immunol | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26204571 |
| Immunity around the clock. | Man K, Loudon A, Chawla A | Science (New York, N.Y.) | 27885005 | Science | 2016 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/27885005 |
| Perinatal Licensing of Thermogenesis by IL-33 and ST2. | Odegaard JI, Lee MW, Sogawa Y, Bertholet AM, Locksley RM, Weinberg DE, Kirichok Y, Deo RC, Chawla A | Cell | 27453471 | Cell | 2016 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/27453471 |
| Eosinophils secrete IL-4 to facilitate liver regeneration. | Goh YP, Henderson NC, Heredia JE, Red Eagle A, Odegaard JI, Lehwald N, Nguyen KD, Sheppard D, Mukundan L, Locksley RM, Chawla A | Proceedings of the National Academy of Sciences of the United States of America | 23716700 | Proc Natl Acad Sci U S A | 2013 Jun 11 | https://www.ncbi.nlm.nih.gov/pubmed/23716700 |
| Type 2 innate lymphoid cells control eosinophil homeostasis. | Nussbaum JC, Van Dyken SJ, von Moltke J, Cheng LE, Mohapatra A, Molofsky AB, Thornton EE, Krummel MF, Chawla A, Liang HE, Locksley RM | Nature | 24037376 | Nature | 2013 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/24037376 |
| Blood spotlight on leukocytes and obesity. | Carvalheira JB, Qiu Y, Chawla A | Blood | 24065242 | Blood | 2013 Nov 7 | https://www.ncbi.nlm.nih.gov/pubmed/24065242 |
| Adipose tissue macrophages: Amicus adipem? | Odegaard JI, Ganeshan K, Chawla A | Cell metabolism | 24315364 | Cell Metab | 2013 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/24315364 |
| On the lookout for viruses that could leap from animals into humans. | Makin S | Nature | 36289378 | Nature | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36289378 |
| Monkeypox emergency: Urgent questions and perspectives. | Rothenburg S, Yang Z, Beard P, Sawyer SL, Titanji B, Gonsalves G, Kindrachuk J | Cell | 35998628 | Cell | 2022 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/35998628 |
| Identifying animal viruses in humans. | Warren CJ, Sawyer SL | Science (New York, N.Y.) | 36893227 | Science | 2023 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/36893227 |
| Primate hemorrhagic fever-causing arteriviruses are poised for spillover to humans. | Warren CJ, Yu S, Peters DK, Barbachano-Guerrero A, Yang Q, Burris BL, Worwa G, Huang IC, Wilkerson GK, Goldberg TL, Kuhn JH, Sawyer SL | Cell | 36182704 | Cell | 2022 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/36182704 |
| Quantification of virus-infected cells using RNA FISH-Flow. | Warren CJ, Barbachano-Guerrero A, Huey D, Yang Q, Worden-Sapper ER, Kuhn JH, Sawyer SL | STAR protocols | 37209094 | STAR Protoc | 2023 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/37209094 |
| Adaptation of CD4 in gorillas and chimpanzees conveyed resistance to simian immunodeficiency viruses. | Warren CJ, Barbachano-Guerrero A, Bauer VL, Stabell AC, Dirasantha O, Yang Q, Sawyer SL | bioRxiv : the preprint server for biology | 38014262 | bioRxiv | 2024 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/38014262 |
| How avian influenza viruses spill over to mammals. | Barbachano-Guerrero A, Perez DR, Sawyer SL | eLife | 37039775 | Elife | 2023 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/37039775 |
| Human mRNA in saliva can correctly identify individuals harboring acute infection. | Yang Q, Meyerson NR, Paige CL, Morrison JH, Clark SK, Fattor WT, Decker CJ, Steiner HR, Lian E, Larremore DB, Perera R, Poeschla EM, Parker R, Dowell RD, Sawyer SL | mBio | 37943059 | mBio | 2023 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/37943059 |
| Structurally divergent and recurrently mutated regions of primate genomes. | Mao Y, Harvey WT, Porubsky D, Munson KM, Hoekzema K, Lewis AP, Audano PA, Rozanski A, Yang X, Zhang S, Yoo D, Gordon DS, Fair T, Wei X, Logsdon GA, Haukness M, Dishuck PC, Jeong H, Del Rosario R, Bauer VL, Fattor WT, Wilkerson GK, Mao Y, Shi Y, Sun Q, Lu Q, Paten B, Bakken TE, Pollen AA, Feng G, Sawyer SL, Warren WC, Carbone L, Eichler EE | Cell | 38428424 | Cell | 2024 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/38428424 |
| Regulation of human interferon signaling by transposon exonization. | Pasquesi GIM, Allen H, Ivancevic A, Barbachano-Guerrero A, Joyner O, Guo K, Simpson DM, Gapin K, Horton I, Nguyen LL, Yang Q, Warren CJ, Florea LD, Bitler BG, Santiago ML, Sawyer SL, Chuong EB | Cell | 39672162 | Cell | 2024 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/39672162 |
| Adaptation of CD4 in gorillas and chimpanzees conveyed resistance to simian immunodeficiency viruses. | Warren CJ, Barbachano-Guerrero A, Bauer VL, Stabell A, Dirasantha O, Yang Q, Sawyer SL | eLife | 40366257 | Elife | 2025 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/40366257 |
| Human ACE2 Polymorphisms from Different Human Populations Modulate SARS-CoV-2 Infection. | Hu P, Bauer VL, Sawyer SL, Diaz-Griffero F | Viruses | 35891433 | Viruses | 2022 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/35891433 |
| High rates of observed face mask use at Colorado universities align with students' opinions about masking and support the safety and viability of in-person higher education during the COVID-19 pandemic. | Clark KC, Bailey MJ, Wasshuber S, Huntley R, Bjorkman KK, Bauer LC, Paige CL, Sawyer SL, Czarnik M, Riggs MA, Gutilla MJ, Alderete TL | BMC public health | 36759815 | BMC Public Health | 2023 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/36759815 |
| Estimating the effect of non-pharmaceutical interventions on US SARS-CoV-2 infections in the first year of the pandemic. | Duncan NA, L'Her GF, Osborne AG, Sawyer SL, Deinert MR | Royal Society open science | 35774134 | R Soc Open Sci | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35774134 |
| RNase L activation in the cytoplasm induces aberrant processing of mRNAs in the nucleus. | Burke JM, Ripin N, Ferretti MB, St Clair LA, Worden-Sapper ER, Salgado F, Sawyer SL, Perera R, Lynch KW, Parker R | PLoS pathogens | 36318584 | PLoS Pathog | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36318584 |
| Spread of a SARS-CoV-2 variant through Europe in the summer of 2020. | Hodcroft EB, Zuber M, Nadeau S, Vaughan TG, Crawford KHD, Althaus CL, Reichmuth ML, Bowen JE, Walls AC, Corti D, Bloom JD, Veesler D, Mateo D, Hernando A, Comas I, González-Candelas F, SeqCOVID-SPAIN consortium, Stadler T, Neher RA | Nature | 34098568 | Nature | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34098568 |
| Sensitivity of SARS-CoV-2 B.1.1.7 to mRNA vaccine-elicited antibodies. | Collier DA, De Marco A, Ferreira IATM, Meng B, Datir RP, Walls AC, Kemp SA, Bassi J, Pinto D, Silacci-Fregni C, Bianchi S, Tortorici MA, Bowen J, Culap K, Jaconi S, Cameroni E, Snell G, Pizzuto MS, Pellanda AF, Garzoni C, Riva A, CITIID-NIHR BioResource COVID-19 Collaboration, Elmer A, Kingston N, Graves B, McCoy LE, Smith KGC, Bradley JR, Temperton N, Ceron-Gutierrez L, Barcenas-Morales G, COVID-19 Genomics UK (COG-UK) Consortium, Harvey W, Virgin HW, Lanzavecchia A, Piccoli L, Doffinger R, Wills M, Veesler D, Corti D, Gupta RK | Nature | 33706364 | Nature | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33706364 |
| SARS-CoV-2 B.1.1.7 sensitivity to mRNA vaccine-elicited, convalescent and monoclonal antibodies. | Collier DA, De Marco A, Ferreira IATM, Meng B, Datir R, Walls AC, Kemp S SA, Bassi J, Pinto D, Fregni CS, Bianchi S, Tortorici MA, Bowen J, Culap K, Jaconi S, Cameroni E, Snell G, Pizzuto MS, Pellanda AF, Garzoni C, Riva A, CITIID-NIHR BioResource COVID-19 Collaboration, Elmer A, Kingston N, Graves B, McCoy LE, Smith KG, Bradley JR, Temperton N, Ceron-Gutierrez L L, Barcenas-Morales G, COVID-19 Genomics UK (COG-UK) consortium, Harvey W, Virgin HW, Lanzavecchia A, Piccoli L, Doffinger R, Wills M, Veesler D, Corti D, Gupta RK | medRxiv : the preprint server for health sciences | 33619509 | medRxiv | 2021 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/33619509 |
| Automatic and accurate ligand structure determination guided by cryo-electron microscopy maps. | Muenks A, Zepeda S, Zhou G, Veesler D, DiMaio F | Nature communications | 36859493 | Nat Commun | 2023 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/36859493 |
| Maturation of SARS-CoV-2 Spike-specific memory B cells drives resilience to viral escape. | Marzi R, Bassi J, Silacci-Fregni C, Bartha I, Muoio F, Culap K, Sprugasci N, Lombardo G, Saliba C, Cameroni E, Cassotta A, Low JS, Walls AC, McCallum M, Tortorici MA, Bowen JE, Dellota EA Jr, Dillen JR, Czudnochowski N, Pertusini L, Terrot T, Lepori V, Tarkowski M, Riva A, Biggiogero M, Franzetti-Pellanda A, Garzoni C, Ferrari P, Ceschi A, Giannini O, Havenar-Daughton C, Telenti A, Arvin A, Virgin HW, Sallusto F, Veesler D, Lanzavecchia A, Corti D, Piccoli L | iScience | 36507220 | iScience | 2023 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/36507220 |
| Human coronavirus HKU1 recognition of the TMPRSS2 host receptor. | McCallum M, Park YJ, Stewart C, Sprouse KR, Brown J, Tortorici MA, Gibson C, Wong E, Ieven M, Telenti A, Veesler D | bioRxiv : the preprint server for biology | 38260518 | bioRxiv | 2024 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/38260518 |
| Maturation of SARS-CoV-2 Spike-specific memory B cells drives resilience to viral escape. | Marzi R, Bassi J, Silacci-Fregni C, Bartha I, Muoio F, Culap K, Sprugasci N, Lombardo G, Saliba C, Cameroni E, Cassotta A, Low JS, Walls AC, McCallum M, Tortorici MA, Bowen JE, Dellota EA Jr, Dillen JR, Czudnochowski N, Pertusini L, Terrot T, Lepori V, Tarkowski M, Riva A, Biggiogero M, Pellanda AF, Garzoni C, Ferrari P, Ceschi A, Giannini O, Havenar-Daughton C, Telenti A, Arvin A, Virgin HW, Sallusto F, Veesler D, Lanzavecchia A, Corti D, Piccoli L | bioRxiv : the preprint server for biology | 36203553 | bioRxiv | 2022 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/36203553 |
| Functional and antigenic landscape of the Nipah virus receptor binding protein. | Larsen BB, McMahon T, Brown JT, Wang Z, Radford CE, Crowe JE Jr, Veesler D, Bloom JD | bioRxiv : the preprint server for biology | 38659959 | bioRxiv | 2024 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/38659959 |
| Computationally designed mRNA-launched protein nanoparticle vaccines. | Hendricks GG, Grigoryan L, Navarro MJ, Catanzaro NJ, Hubbard ML, Powers JM, Mattocks M, Treichel C, Walls AC, Lee J, Ellis D, Wang JYJ, Cheng S, Miranda MC, Valdez A, Chao CW, Chan S, Men C, Johnson MR, Hui H, Wu SY, Lujan V, Muramatsu H, Lin PJC, Sung MMH, Tam YK, Leaf EM, Pardi N, Baric RS, Pulendran B, Veesler D, Schäfer A, King NP | bioRxiv : the preprint server for biology | 39091730 | bioRxiv | 2024 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/39091730 |
| Design of customized coronavirus receptors. | Liu P, Huang ML, Guo H, McCallum M, Si JY, Chen YM, Wang CL, Yu X, Shi LL, Xiong Q, Ma CB, Bowen JE, Tong F, Liu C, Sun YH, Yang X, Chen J, Guo M, Li J, Corti D, Veesler D, Shi ZL, Yan H | Nature | 39478224 | Nature | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39478224 |
| Potent neutralization of SARS-CoV-2 variants by RBD nanoparticle and prefusion-stabilized spike immunogens. | Miranda MC, Kepl E, Navarro MJ, Chen C, Johnson M, Sprouse KR, Stewart C, Palser A, Valdez A, Pettie D, Sydeman C, Ogohara C, Kraft JC, Pham M, Murphy M, Wrenn S, Fiala B, Ravichandran R, Ellis D, Carter L, Corti D, Kellam P, Lee K, Walls AC, Veesler D, King NP | NPJ vaccines | 39379400 | NPJ Vaccines | 2024 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/39379400 |
| Mapping Neutralizing and Immunodominant Sites on the SARS-CoV-2 Spike Receptor-Binding Domain by Structure-Guided High-Resolution Serology. | Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D | Cell | 32991844 | Cell | 2020 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/32991844 |
| Structural basis for broad coronavirus neutralization. | Sauer MM, Tortorici MA, Park YJ, Walls AC, Homad L, Acton O, Bowen J, Wang C, Xiong X, de van der Schueren W, Quispe J, Hoffstrom BG, Bosch BJ, McGuire AT, Veesler D | bioRxiv : the preprint server for biology | 33398277 | bioRxiv | 2021 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/33398277 |
| Computational design of mechanically coupled axle-rotor protein assemblies. | Courbet A, Hansen J, Hsia Y, Bethel N, Park YJ, Xu C, Moyer A, Boyken SE, Ueda G, Nattermann U, Nagarajan D, Silva DA, Sheffler W, Quispe J, Nord A, King N, Bradley P, Veesler D, Kollman J, Baker D | Science (New York, N.Y.) | 35446645 | Science | 2022 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/35446645 |
| Omicron BA.1 and BA.2 neutralizing activity elicited by a comprehensive panel of human vaccines. | Bowen JE, Sprouse KR, Walls AC, Mazzitelli IG, Logue JK, Franko NM, Ahmed K, Shariq A, Cameroni E, Gori A, Bandera A, Posavad CM, Dan JM, Zhang Z, Weiskopf D, Sette A, Crotty S, Iqbal NT, Corti D, Geffner J, Grifantini R, Chu HY, Veesler D | bioRxiv : the preprint server for biology | 35313570 | bioRxiv | 2022 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/35313570 |
| Functional Analysis of the Fusion and Attachment Glycoproteins of Mojiang Henipavirus. | Cheliout Da Silva S, Yan L, Dang HV, Xu K, Epstein JH, Veesler D, Broder CC | Viruses | 33809833 | Viruses | 2021 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/33809833 |
| Elicitation of broadly protective sarbecovirus immunity by receptor-binding domain nanoparticle vaccines. | Walls AC, Miranda MC, Schäfer A, Pham MN, Greaney A, Arunachalam PS, Navarro MJ, Tortorici MA, Rogers K, O'Connor MA, Shirreff L, Ferrell DE, Bowen J, Brunette N, Kepl E, Zepeda SK, Starr T, Hsieh CL, Fiala B, Wrenn S, Pettie D, Sydeman C, Sprouse KR, Johnson M, Blackstone A, Ravichandran R, Ogohara C, Carter L, Tilles SW, Rappuoli R, Leist SR, Martinez DR, Clark M, Tisch R, O'Hagan DT, Van Der Most R, Van Voorhis WC, Corti D, McLellan JS, Kleanthous H, Sheahan TP, Smith KD, Fuller DH, Villinger F, Bloom J, Pulendran B, Baric RS, King NP, Veesler D | Cell | 34619077 | Cell | 2021 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/34619077 |
| Antibody-mediated broad sarbecovirus neutralization through ACE2 molecular mimicry. | Park YJ, De Marco A, Starr TN, Liu Z, Pinto D, Walls AC, Zatta F, Zepeda SK, Bowen J, Sprouse KS, Joshi A, Giurdanella M, Guarino B, Noack J, Abdelnabi R, Foo SC, Lempp FA, Benigni F, Snell G, Neyts J, Whelan SP, Virgin HW, Bloom JD, Corti D, Pizzuto MS, Veesler D | bioRxiv : the preprint server for biology | 34671770 | bioRxiv | 2021 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/34671770 |
| ACE2 binding is an ancestral and evolvable trait of sarbecoviruses. | Starr TN, Zepeda SK, Walls AC, Greaney AJ, Alkhovsky S, Veesler D, Bloom JD | Nature | 35114688 | Nature | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35114688 |
| Delta breakthrough infections elicit potent, broad and durable neutralizing antibody responses. | Walls AC, Sprouse KR, Joshi A, Bowen JE, Franko N, Navarro MJ, Stewart C, McCallum M, Goecker EA, Degli-Angeli EJ, Logue J, Greninger A, Chu H, Veesler D | bioRxiv : the preprint server for biology | 34931192 | bioRxiv | 2021 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/34931192 |
| A SARS-CoV-2 variant elicits an antibody response with a shifted immunodominance hierarchy. | Greaney AJ, Starr TN, Eguia RT, Loes AN, Khan K, Karim F, Cele S, Bowen JE, Logue JK, Corti D, Veesler D, Chu HY, Sigal A, Bloom JD | PLoS pathogens | 35134084 | PLoS Pathog | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35134084 |
| Lectins enhance SARS-CoV-2 infection and influence neutralizing antibodies. | Lempp FA, Soriaga LB, Montiel-Ruiz M, Benigni F, Noack J, Park YJ, Bianchi S, Walls AC, Bowen JE, Zhou J, Kaiser H, Joshi A, Agostini M, Meury M, Dellota E Jr, Jaconi S, Cameroni E, Martinez-Picado J, Vergara-Alert J, Izquierdo-Useros N, Virgin HW, Lanzavecchia A, Veesler D, Purcell LA, Telenti A, Corti D | Nature | 34464958 | Nature | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34464958 |
| Structural basis for broad coronavirus neutralization. | Sauer MM, Tortorici MA, Park YJ, Walls AC, Homad L, Acton OJ, Bowen JE, Wang C, Xiong X, de van der Schueren W, Quispe J, Hoffstrom BG, Bosch BJ, McGuire AT, Veesler D | Nature structural & molecular biology | 33981021 | Nat Struct Mol Biol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33981021 |
| Broadly neutralizing antibody cocktails targeting Nipah virus and Hendra virus fusion glycoproteins. | Dang HV, Cross RW, Borisevich V, Bornholdt ZA, West BR, Chan YP, Mire CE, Da Silva SC, Dimitrov AS, Yan L, Amaya M, Navaratnarajah CK, Zeitlin L, Geisbert TW, Broder CC, Veesler D | Nature structural & molecular biology | 33927387 | Nat Struct Mol Biol | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33927387 |
| Antibody-mediated broad sarbecovirus neutralization through ACE2 molecular mimicry. | Park YJ, De Marco A, Starr TN, Liu Z, Pinto D, Walls AC, Zatta F, Zepeda SK, Bowen JE, Sprouse KR, Joshi A, Giurdanella M, Guarino B, Noack J, Abdelnabi R, Foo SC, Rosen LE, Lempp FA, Benigni F, Snell G, Neyts J, Whelan SPJ, Virgin HW, Bloom JD, Corti D, Pizzuto MS, Veesler D | Science (New York, N.Y.) | 34990214 | Science | 2022 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/34990214 |
| Architecture and antigenicity of the Nipah virus attachment glycoprotein. | Wang Z, Amaya M, Addetia A, Dang HV, Reggiano G, Yan L, Hickey AC, DiMaio F, Broder CC, Veesler D | Science (New York, N.Y.) | 35239409 | Science | 2022 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/35239409 |
| Discovery and Characterization of Spike N-Terminal Domain-Binding Aptamers for Rapid SARS-CoV-2 Detection. | Kacherovsky N, Yang LF, Dang HV, Cheng EL, Cardle II, Walls AC, McCallum M, Sellers DL, DiMaio F, Salipante SJ, Corti D, Veesler D, Pun SH | Angewandte Chemie (International ed. in English) | 34328683 | Angew Chem Int Ed Engl | 2021 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/34328683 |
| Regulatory T cell-like response to SARS-CoV-2 in Jamaican fruit bats (Artibeus jamaicensis) transduced with human ACE2. | Burke B, Rocha SM, Zhan S, Eckley M, Reasoner C, Addetia A, Lewis J, Fagre A, Charley PA, Richt JA, Weiss SR, Tjalkens RB, Veesler D, Aboellail T, Schountz T | PLoS pathogens | 37856551 | PLoS Pathog | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37856551 |
| Broad receptor tropism and immunogenicity of a clade 3 sarbecovirus. | Lee J, Zepeda SK, Park YJ, Taylor AL, Quispe J, Stewart C, Leaf EM, Treichel C, Corti D, King NP, Starr TN, Veesler D | Cell host & microbe | 37989312 | Cell Host Microbe | 2023 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/37989312 |
| Neutralization, effector function and immune imprinting of Omicron variants. | Addetia A, Piccoli L, Case JB, Park YJ, Beltramello M, Guarino B, Dang H, de Melo GD, Pinto D, Sprouse K, Scheaffer SM, Bassi J, Silacci-Fregni C, Muoio F, Dini M, Vincenzetti L, Acosta R, Johnson D, Subramanian S, Saliba C, Giurdanella M, Lombardo G, Leoni G, Culap K, McAlister C, Rajesh A, Dellota E Jr, Zhou J, Farhat N, Bohan D, Noack J, Chen A, Lempp FA, Quispe J, Kergoat L, Larrous F, Cameroni E, Whitener B, Giannini O, Cippà P, Ceschi A, Ferrari P, Franzetti-Pellanda A, Biggiogero M, Garzoni C, Zappi S, Bernasconi L, Kim MJ, Rosen LE, Schnell G, Czudnochowski N, Benigni F, Franko N, Logue JK, Yoshiyama C, Stewart C, Chu H, Bourhy H, Schmid MA, Purcell LA, Snell G, Lanzavecchia A, Diamond MS, Corti D, Veesler D | Nature | 37648855 | Nature | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37648855 |
| Hierarchical design of pseudosymmetric protein nanoparticles. | Dowling QM, Park YJ, Gerstenmaier N, Yang EC, Wargacki A, Hsia Y, Fries CN, Ravichandran R, Walkey C, Burrell A, Veesler D, Baker D, King NP | bioRxiv : the preprint server for biology | 37398374 | bioRxiv | 2023 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/37398374 |
| Multivalent designed proteins neutralize SARS-CoV-2 variants of concern and confer protection against infection in mice. | Hunt AC, Case JB, Park YJ, Cao L, Wu K, Walls AC, Liu Z, Bowen JE, Yeh HW, Saini S, Helms L, Zhao YT, Hsiang TY, Starr TN, Goreshnik I, Kozodoy L, Carter L, Ravichandran R, Green LB, Matochko WL, Thomson CA, Vögeli B, Krüger A, VanBlargan LA, Chen RE, Ying B, Bailey AL, Kafai NM, Boyken SE, Ljubetič A, Edman N, Ueda G, Chow CM, Johnson M, Addetia A, Navarro MJ, Panpradist N, Gale M Jr, Freedman BS, Bloom JD, Ruohola-Baker H, Whelan SPJ, Stewart L, Diamond MS, Veesler D, Jewett MC, Baker D | Science translational medicine | 35412328 | Sci Transl Med | 2022 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/35412328 |
| SARS-CoV-2 spike conformation determines plasma neutralizing activity elicited by a wide panel of human vaccines. | Bowen JE, Park YJ, Stewart C, Brown JT, Sharkey WK, Walls AC, Joshi A, Sprouse KR, McCallum M, Tortorici MA, Franko NM, Logue JK, Mazzitelli IG, Nguyen AW, Silva RP, Huang Y, Low JS, Jerak J, Tiles SW, Ahmed K, Shariq A, Dan JM, Zhang Z, Weiskopf D, Sette A, Snell G, Posavad CM, Iqbal NT, Geffner J, Bandera A, Gori A, Sallusto F, Maynard JA, Crotty S, Van Voorhis WC, Simmerling C, Grifantini R, Chu HY, Corti D, Veesler D | Science immunology | 36356052 | Sci Immunol | 2022 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/36356052 |
| Deep mutational scans for ACE2 binding, RBD expression, and antibody escape in the SARS-CoV-2 Omicron BA.1 and BA.2 receptor-binding domains. | Starr TN, Greaney AJ, Stewart CM, Walls AC, Hannon WW, Veesler D, Bloom JD | PLoS pathogens | 36399443 | PLoS Pathog | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36399443 |
| Broadly neutralizing antibodies against sarbecoviruses generated by immunization of macaques with an AS03-adjuvanted COVID-19 vaccine. | Feng Y, Yuan M, Powers JM, Hu M, Munt JE, Arunachalam PS, Leist SR, Bellusci L, Kim J, Sprouse KR, Adams LE, Sundaramurthy S, Zhu X, Shirreff LM, Mallory ML, Scobey TD, Moreno A, O'Hagan DT, Kleanthous H, Villinger FJ, Veesler D, King NP, Suthar MS, Khurana S, Baric RS, Wilson IA, Pulendran B | Science translational medicine | 37163615 | Sci Transl Med | 2023 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/37163615 |
| Close relatives of MERS-CoV in bats use ACE2 as their functional receptors. | Xiong Q, Cao L, Ma C, Tortorici MA, Liu C, Si J, Liu P, Gu M, Walls AC, Wang C, Shi L, Tong F, Huang M, Li J, Zhao C, Shen C, Chen Y, Zhao H, Lan K, Corti D, Veesler D, Wang X, Yan H | Nature | 36477529 | Nature | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36477529 |
| ACE2-binding exposes the SARS-CoV-2 fusion peptide to broadly neutralizing coronavirus antibodies. | Low JS, Jerak J, Tortorici MA, McCallum M, Pinto D, Cassotta A, Foglierini M, Mele F, Abdelnabi R, Weynand B, Noack J, Montiel-Ruiz M, Bianchi S, Benigni F, Sprugasci N, Joshi A, Bowen JE, Stewart C, Rexhepaj M, Walls AC, Jarrossay D, Morone D, Paparoditis P, Garzoni C, Ferrari P, Ceschi A, Neyts J, Purcell LA, Snell G, Corti D, Lanzavecchia A, Veesler D, Sallusto F | Science (New York, N.Y.) | 35857703 | Science | 2022 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/35857703 |
| Structural changes in the SARS-CoV-2 spike E406W mutant escaping a clinical monoclonal antibody cocktail. | Addetia A, Park YJ, Starr T, Greaney AJ, Sprouse KR, Bowen JE, Tiles SW, Van Voorhis WC, Bloom JD, Corti D, Walls AC, Veesler D | Cell reports | 37300832 | Cell Rep | 2023 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/37300832 |
| Molecular basis of convergent evolution of ACE2 receptor utilization among HKU5 coronaviruses. | Park YJ, Liu C, Lee J, Brown JT, Ma CB, Liu P, Xiong Q, Stewart C, Addetia A, Craig CJ, Tortorici MA, Alshukari A, Starr T, Yan H, Veesler D | bioRxiv : the preprint server for biology | 39253417 | bioRxiv | 2024 Aug 28 | https://www.ncbi.nlm.nih.gov/pubmed/39253417 |
| Local structural flexibility drives oligomorphism in computationally designed protein assemblies. | Khmelinskaia A, Bethel NP, Fatehi F, Mallik BB, Antanasijevic A, Borst AJ, Lai SH, Chim HY, Wang JY', Miranda MC, Watkins AM, Ogohara C, Caldwell S, Wu M, Heck AJR, Veesler D, Ward AB, Baker D, Twarock R, King NP | Nature structural & molecular biology | 40011747 | Nat Struct Mol Biol | 2025 Jun | https://www.ncbi.nlm.nih.gov/pubmed/40011747 |
| ACE2 utilization of HKU25 clade MERS-related coronaviruses with broad geographic distribution. | Liu C, Park YJ, Ma CB, Stuart C, Gen R, Sun YC, Yang X, Lin MY, Xiong Q, Si JY, Liu P, Veesler D, Yan H | bioRxiv : the preprint server for biology | 40027745 | bioRxiv | 2025 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/40027745 |
| ACE2 utilization of HKU25 clade MERS-related coronaviruses with broad geographic distribution. | Liu C, Park YJ, Ma CB, Stuart C, Gen R, Sun YC, Yang X, Lin MY, Xiong Q, Si JY, Liu P, Veesler D, Yan H | Research square | 40162213 | Res Sq | 2025 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/40162213 |
| Isolation and escape mapping of broadly neutralizing antibodies against emerging delta-coronaviruses. | Rexhepaj M, Asarnow D, Perruzza L, Park YJ, Guarino B, Mccallum M, Culap K, Saliba C, Leoni G, Balmelli A, Yoshiyama CN, Dickinson MS, Quispe J, Brown JT, Tortorici MA, Sprouse KR, Taylor AL, Corti D, Starr TN, Benigni F, Veesler D | Immunity | 39488210 | Immunity | 2024 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/39488210 |
| A pan-variant miniprotein inhibitor protects against SARS-CoV-2 variants. | Lee J, Case JB, Park YJ, Ravichandran R, Asarnow D, Tortorici MA, Brown JT, Sanapala S, Carter L, Baker D, Diamond MS, Veesler D | bioRxiv : the preprint server for biology | 39149384 | bioRxiv | 2024 Aug 10 | https://www.ncbi.nlm.nih.gov/pubmed/39149384 |
| SARS-CoV-2 spike conformation determines plasma neutralizing activity. | Bowen JE, Walls AC, Joshi A, Sprouse KR, Stewart C, Tortorici MA, Franko NM, Logue JK, Mazzitelli IG, Tiles SW, Ahmed K, Shariq A, Snell G, Iqbal NT, Geffner J, Bandera A, Gori A, Grifantini R, Chu HY, Van Voorhis WC, Corti D, Veesler D | bioRxiv : the preprint server for biology | 34981060 | bioRxiv | 2021 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/34981060 |
| Omicron spike function and neutralizing activity elicited by a comprehensive panel of vaccines. | Bowen JE, Addetia A, Dang HV, Stewart C, Brown JT, Sharkey WK, Sprouse KR, Walls AC, Mazzitelli IG, Logue JK, Franko NM, Czudnochowski N, Powell AE, Dellota E Jr, Ahmed K, Ansari AS, Cameroni E, Gori A, Bandera A, Posavad CM, Dan JM, Zhang Z, Weiskopf D, Sette A, Crotty S, Iqbal NT, Corti D, Geffner J, Snell G, Grifantini R, Chu HY, Veesler D | Science (New York, N.Y.) | 35857529 | Science | 2022 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/35857529 |
| Potent monoclonal antibody-mediated neutralization of a divergent Hendra virus variant. | Wang Z, Dang HV, Amaya M, Xu Y, Yin R, Yan L, Hickey AC, Annand EJ, Horsburgh BA, Reid PA, Smith I, Eden JS, Xu K, Broder CC, Veesler D | Proceedings of the National Academy of Sciences of the United States of America | 35617431 | Proc Natl Acad Sci U S A | 2022 May 31 | https://www.ncbi.nlm.nih.gov/pubmed/35617431 |
| Structure-based design of stabilized recombinant influenza neuraminidase tetramers. | Ellis D, Lederhofer J, Acton OJ, Tsybovsky Y, Kephart S, Yap C, Gillespie RA, Creanga A, Olshefsky A, Stephens T, Pettie D, Murphy M, Sydeman C, Ahlrichs M, Chan S, Borst AJ, Park YJ, Lee KK, Graham BS, Veesler D, King NP, Kanekiyo M | Nature communications | 35383176 | Nat Commun | 2022 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/35383176 |
| Antigen- and scaffold-specific antibody responses to protein nanoparticle immunogens. | Kraft JC, Pham MN, Shehata L, Brinkkemper M, Boyoglu-Barnum S, Sprouse KR, Walls AC, Cheng S, Murphy M, Pettie D, Ahlrichs M, Sydeman C, Johnson M, Blackstone A, Ellis D, Ravichandran R, Fiala B, Wrenn S, Miranda M, Sliepen K, Brouwer PJM, Antanasijevic A, Veesler D, Ward AB, Kanekiyo M, Pepper M, Sanders RW, King NP | Cell reports. Medicine | 36206752 | Cell Rep Med | 2022 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/36206752 |
| Immunization with a self-assembling nanoparticle vaccine displaying EBV gH/gL protects humanized mice against lethal viral challenge. | Malhi H, Homad LJ, Wan YH, Poudel B, Fiala B, Borst AJ, Wang JY, Walkey C, Price J, Wall A, Singh S, Moodie Z, Carter L, Handa S, Correnti CE, Stoddard BL, Veesler D, Pancera M, Olson J, King NP, McGuire AT | Cell reports. Medicine | 35705092 | Cell Rep Med | 2022 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/35705092 |
| Broadly neutralizing antibodies overcome SARS-CoV-2 Omicron antigenic shift. | Cameroni E, Bowen JE, Rosen LE, Saliba C, Zepeda SK, Culap K, Pinto D, VanBlargan LA, De Marco A, di Iulio J, Zatta F, Kaiser H, Noack J, Farhat N, Czudnochowski N, Havenar-Daughton C, Sprouse KR, Dillen JR, Powell AE, Chen A, Maher C, Yin L, Sun D, Soriaga L, Bassi J, Silacci-Fregni C, Gustafsson C, Franko NM, Logue J, Iqbal NT, Mazzitelli I, Geffner J, Grifantini R, Chu H, Gori A, Riva A, Giannini O, Ceschi A, Ferrari P, Cippà PE, Franzetti-Pellanda A, Garzoni C, Halfmann PJ, Kawaoka Y, Hebner C, Purcell LA, Piccoli L, Pizzuto MS, Walls AC, Diamond MS, Telenti A, Virgin HW, Lanzavecchia A, Snell G, Veesler D, Corti D | Nature | 35016195 | Nature | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/35016195 |
| N-terminal domain antigenic mapping reveals a site of vulnerability for SARS-CoV-2. | McCallum M, De Marco A, Lempp FA, Tortorici MA, Pinto D, Walls AC, Beltramello M, Chen A, Liu Z, Zatta F, Zepeda S, di Iulio J, Bowen JE, Montiel-Ruiz M, Zhou J, Rosen LE, Bianchi S, Guarino B, Fregni CS, Abdelnabi R, Foo SC, Rothlauf PW, Bloyet LM, Benigni F, Cameroni E, Neyts J, Riva A, Snell G, Telenti A, Whelan SPJ, Virgin HW, Corti D, Pizzuto MS, Veesler D | Cell | 33761326 | Cell | 2021 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/33761326 |
| Emergence and spread of a SARS-CoV-2 variant through Europe in the summer of 2020. | Hodcroft EB, Zuber M, Nadeau S, Vaughan TG, Crawford KHD, Althaus CL, Reichmuth ML, Bowen JE, Walls AC, Corti D, Bloom JD, Veesler D, Mateo D, Hernando A, Comas I, González Candelas F, SeqCOVID-SPAIN consortium, Stadler T, Neher RA | medRxiv : the preprint server for health sciences | 33269368 | medRxiv | 2021 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/33269368 |
| Structure and design of Langya virus glycoprotein antigens. | Wang Z, McCallum M, Yan L, Gibson CA, Sharkey W, Park YJ, Dang HV, Amaya M, Person A, Broder CC, Veesler D | Proceedings of the National Academy of Sciences of the United States of America | 38593070 | Proc Natl Acad Sci U S A | 2024 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/38593070 |
| Structure and design of Langya virus glycoprotein antigens. | Wang Z, McCallum M, Yan L, Sharkey W, Park YJ, Dang HV, Amaya M, Person A, Broder CC, Veesler D | bioRxiv : the preprint server for biology | 37645760 | bioRxiv | 2023 Aug 26 | https://www.ncbi.nlm.nih.gov/pubmed/37645760 |
| A broadly generalizable stabilization strategy for sarbecovirus fusion machinery vaccines. | Lee J, Stewart C, Schaefer A, Leaf EM, Park YJ, Asarnow D, Powers JM, Treichel C, Corti D, Baric R, King NP, Veesler D | bioRxiv : the preprint server for biology | 38168207 | bioRxiv | 2023 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/38168207 |
| Persistent immune imprinting after XBB.1.5 COVID vaccination in humans. | Tortorici MA, Addetia A, Seo AJ, Brown J, Sprouse KR, Logue J, Clark E, Franko N, Chu H, Veesler D | bioRxiv : the preprint server for biology | 38076876 | bioRxiv | 2023 Nov 30 | https://www.ncbi.nlm.nih.gov/pubmed/38076876 |
| A potent pan-sarbecovirus neutralizing antibody resilient to epitope diversification. | Rosen LE, Tortorici MA, De Marco A, Pinto D, Foreman WB, Taylor AL, Park YJ, Bohan D, Rietz T, Errico JM, Hauser K, Dang HV, Chartron JW, Giurdanella M, Cusumano G, Saliba C, Zatta F, Sprouse KR, Addetia A, Zepeda SK, Brown J, Lee J, Dellota E Jr, Rajesh A, Noack J, Tao Q, DaCosta Y, Tsu B, Acosta R, Subramanian S, de Melo GD, Kergoat L, Zhang I, Liu Z, Guarino B, Schmid MA, Schnell G, Miller JL, Lempp FA, Czudnochowski N, Cameroni E, Whelan SPJ, Bourhy H, Purcell LA, Benigni F, di Iulio J, Pizzuto MS, Lanzavecchia A, Telenti A, Snell G, Corti D, Veesler D, Starr TN | Cell | 39383863 | Cell | 2024 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/39383863 |
| Designed miniproteins potently inhibit and protect against MERS-CoV. | Ragotte RJ, Tortorici MA, Catanzaro NJ, Addetia A, Coventry B, Froggatt HM, Lee J, Stewart C, Brown JT, Goreshnik I, Sims JN, Milles LF, Wicky BIM, Glögl M, Gerben S, Kang A, Bera AK, Sharkey W, Schäfer A, Baric RS, Baker D, Veesler D | bioRxiv : the preprint server for biology | 39574666 | bioRxiv | 2024 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/39574666 |
| Design of universal Ebola virus vaccine candidates via immunofocusing. | Xu D, Powell AE, Utz A, Sanyal M, Do J, Patten JJ, Moliva JI, Sullivan NJ, Davey RA, Kim PS | bioRxiv : the preprint server for biology | 37904982 | bioRxiv | 2023 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/37904982 |
| Designing epitope-focused vaccines via antigen reorientation. | Xu D, Li C, Utz A, Weidenbacher PAB, Tang S, Sanyal M, Pulendran B, Kim PS | bioRxiv : the preprint server for biology | 36597536 | bioRxiv | 2022 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/36597536 |
| A ferritin-based COVID-19 nanoparticle vaccine that elicits robust, durable, broad-spectrum neutralizing antisera in non-human primates. | Weidenbacher PA, Sanyal M, Friedland N, Tang S, Arunachalam PS, Hu M, Kumru OS, Morris MK, Fontenot J, Shirreff L, Do J, Cheng YC, Vasudevan G, Feinberg MB, Villinger FJ, Hanson C, Joshi SB, Volkin DB, Pulendran B, Kim PS | Nature communications | 37069151 | Nat Commun | 2023 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/37069151 |
| Genome-Scale CRISPR Screening Reveals Host Factors Required for Ribosome Formation and Viral Replication. | Ohlson MB, Eitson JL, Wells AI, Kumar A, Jang S, Ni C, Xing C, Buszczak M, Schoggins JW | mBio | 36809113 | mBio | 2023 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/36809113 |
| Bringing immunofocusing into focus. | Musunuri S, Weidenbacher PAB, Kim PS | NPJ vaccines | 38195562 | NPJ Vaccines | 2024 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/38195562 |
| Engineering a SARS-CoV-2 Vaccine Targeting the Receptor-Binding Domain Cryptic-Face via Immunofocusing. | Bruun TUJ, Do J, Weidenbacher PA, Utz A, Kim PS | ACS central science | 39463836 | ACS Cent Sci | 2024 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/39463836 |
| Decreased efficacy of a COVID-19 vaccine due to mutations present in early SARS-CoV-2 variants of concern. | Weidenbacher PA, Friedland N, Sanyal M, Morris MK, Do J, Hanson C, Kim PS | bioRxiv : the preprint server for biology | 37425802 | bioRxiv | 2023 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/37425802 |
| Structure-guided stabilization improves the ability of the HIV-1 gp41 hydrophobic pocket to elicit neutralizing antibodies. | Bruun TUJ, Tang S, Erwin G, Deis L, Fernandez D, Kim PS | The Journal of biological chemistry | 36841484 | J Biol Chem | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/36841484 |
| Efficient evolution of human antibodies from general protein language models. | Hie BL, Shanker VR, Xu D, Bruun TUJ, Weidenbacher PA, Tang S, Wu W, Pak JE, Kim PS | Nature biotechnology | 37095349 | Nat Biotechnol | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/37095349 |
| Formulation development and comparability studies with an aluminum-salt adjuvanted SARS-CoV-2 Spike ferritin nanoparticle vaccine antigen produced from two different cell lines. | Kumru OS, Sanyal M, Friedland N, Hickey J, Joshi R, Weidenbacher P, Do J, Cheng YC, Kim PS, Joshi SB, Volkin DB | bioRxiv : the preprint server for biology | 37066156 | bioRxiv | 2023 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/37066156 |
| Design of universal Ebola virus vaccine candidates via immunofocusing. | Xu D, Powell AE, Utz A, Sanyal M, Do J, Patten JJ, Moliva JI, Sullivan NJ, Davey RA, Kim PS | Proceedings of the National Academy of Sciences of the United States of America | 38319964 | Proc Natl Acad Sci U S A | 2024 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/38319964 |
| Vaccine design via antigen reorientation. | Xu D, Carter JJ, Li C, Utz A, Weidenbacher PAB, Tang S, Sanyal M, Pulendran B, Barnes CO, Kim PS | Nature chemical biology | 38225471 | Nat Chem Biol | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38225471 |
| Converting non-neutralizing SARS-CoV-2 antibodies into broad-spectrum inhibitors. | Weidenbacher PA, Waltari E, de Los Rios Kobara I, Bell BN, Morris MK, Cheng YC, Hanson C, Pak JE, Kim PS | Nature chemical biology | 36076082 | Nat Chem Biol | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36076082 |
| Multimerization of Ebola GPΔmucin on protein nanoparticle vaccines has minimal effect on elicitation of neutralizing antibodies. | Powell AE, Xu D, Roth GA, Zhang K, Chiu W, Appel EA, Kim PS | Frontiers in immunology | 36091016 | Front Immunol | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36091016 |
| Formulation development and comparability studies with an aluminum-salt adjuvanted SARS-CoV-2 spike ferritin nanoparticle vaccine antigen produced from two different cell lines. | Kumru OS, Sanyal M, Friedland N, Hickey JM, Joshi R, Weidenbacher P, Do J, Cheng YC, Kim PS, Joshi SB, Volkin DB | Vaccine | 37620203 | Vaccine | 2023 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/37620203 |
| A ferritin-based COVID-19 nanoparticle vaccine that elicits robust, durable, broad-spectrum neutralizing antisera in non-human primates. | Weidenbacher PA, Sanyal M, Friedland N, Tang S, Arunachalam PS, Hu M, Kumru OS, Morris MK, Fontenot J, Shirreff L, Do J, Cheng YC, Vasudevan G, Feinberg MB, Villinger FJ, Hanson C, Joshi SB, Volkin DB, Pulendran B, Kim PS | bioRxiv : the preprint server for biology | 36597527 | bioRxiv | 2022 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/36597527 |
| Engineering a SARS-CoV-2 vaccine targeting the RBD cryptic-face via immunofocusing. | Bruun TUJ, Do J, Weidenbacher PA, Kim PS | bioRxiv : the preprint server for biology | 38895327 | bioRxiv | 2024 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/38895327 |
| Simplified Purification of Glycoprotein-Modified Ferritin Nanoparticles for Vaccine Development. | Weidenbacher P, Musunuri S, Powell AE, Tang S, Do J, Sanyal M, Kim PS | Biochemistry | 35960597 | Biochemistry | 2023 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/35960597 |
| HIV-1 prehairpin intermediate inhibitors show efficacy independent of neutralization tier. | Bell BN, Bruun TUJ, Friedland N, Kim PS | Proceedings of the National Academy of Sciences of the United States of America | 36795752 | Proc Natl Acad Sci U S A | 2023 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/36795752 |
| Enhancing HIV-1 Neutralization by Increasing the Local Concentration of Membrane-Proximal External Region-Directed Broadly Neutralizing Antibodies. | Kim S, Filsinger Interrante MV, Kim PS | Journal of virology | 36541800 | J Virol | 2023 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/36541800 |
| A broad antibody with enhanced HIV-1 neutralization via bispecific antibody-mediated prepositioning. | Kim S, Radford CE, Xu D, Zhong J, Do J, Pham DM, Travisano KA, Filsinger Interrante MV, Bruun TUJ, Rezek V, Wilder B, Palomares M, Seaman MS, Kitchen SG, Bloom JD, Kim PS | Nature communications | 40383778 | Nat Commun | 2025 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/40383778 |
| TRIM7 inhibits enterovirus replication and promotes emergence of a viral variant with increased pathogenicity. | Fan W, Mar KB, Sari L, Gaszek IK, Cheng Q, Evers BM, Shelton JM, Wight-Carter M, Siegwart DJ, Lin MM, Schoggins JW | Cell | 34062120 | Cell | 2021 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/34062120 |
| Overexpression screen of interferon-stimulated genes identifies RARRES3 as a restrictor of Toxoplasma gondii infection. | Rinkenberger N, Abrams ME, Matta SK, Schoggins JW, Alto NM, Sibley LD | eLife | 34871166 | Elife | 2021 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/34871166 |
| Shiftless inhibits flavivirus replication in vitro and is neuroprotective in a mouse model of Zika virus pathogenesis. | Hanners NW, Mar KB, Boys IN, Eitson JL, De La Cruz-Rivera PC, Richardson RB, Fan W, Wight-Carter M, Schoggins JW | Proceedings of the National Academy of Sciences of the United States of America | 34873063 | Proc Natl Acad Sci U S A | 2021 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/34873063 |
| Enterovirus 3C Protease Cleaves TRIM7 To Dampen Its Antiviral Activity. | Fan W, McDougal MB, Schoggins JW | Journal of virology | 36106874 | J Virol | 2022 Oct 12 | https://www.ncbi.nlm.nih.gov/pubmed/36106874 |
| The mechanism of RNA capping by SARS-CoV-2. | Park GJ, Osinski A, Hernandez G, Eitson JL, Majumdar A, Tonelli M, Henzler-Wildman K, Pawłowski K, Chen Z, Li Y, Schoggins JW, Tagliabracci VS | Research square | 35194601 | Res Sq | 2022 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/35194601 |
| CRISPR screening reveals a dependency on ribosome recycling for efficient SARS-CoV-2 programmed ribosomal frameshifting and viral replication. | Rehfeld F, Eitson JL, Ohlson MB, Chang TC, Schoggins JW, Mendell JT | Cell reports | 36753415 | Cell Rep | 2023 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/36753415 |
| LY6E is a pan-coronavirus restriction factor in the respiratory tract. | Mar KB, Wells AI, Caballero Van Dyke MC, Lopez AH, Eitson JL, Fan W, Hanners NW, Evers BM, Shelton JM, Schoggins JW | Nature microbiology | 37443277 | Nat Microbiol | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37443277 |
| A concerted mechanism involving ACAT and SREBPs by which oxysterols deplete accessible cholesterol to restrict microbial infection. | Heisler DB, Johnson KA, Ma DH, Ohlson MB, Zhang L, Tran M, Corley CD, Abrams ME, McDonald JG, Schoggins JW, Alto NM, Radhakrishnan A | eLife | 36695568 | Elife | 2023 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/36695568 |
| Interferon inhibits a model RNA virus via a limited set of inducible effector genes. | McDougal MB, De Maria AM, Ohlson MB, Kumar A, Xing C, Schoggins JW | EMBO reports | 37497756 | EMBO Rep | 2023 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/37497756 |
| TRIM32 inhibits Venezuelan equine encephalitis virus infection by targeting a late step in viral entry. | Xie Y, Cao J, Gan S, Xu L, Zhang D, Qian S, Xu F, Ding Q, Schoggins JW, Fan W | PLoS pathogens | 39527628 | PLoS Pathog | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39527628 |
| TRIM32 inhibits Venezuelan Equine Encephalitis Virus Infection by targeting a late step in viral entry. | Xie Y, Cao J, Gan S, Xu L, Zhang D, Qian S, Xu F, Ding Q, Schoggins JW, Fan W | bioRxiv : the preprint server for biology | 38895352 | bioRxiv | 2024 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/38895352 |
| SARS-CoV-2 spike protein induces inflammation via TLR2-dependent activation of the NF-κB pathway. | Khan S, Shafiei MS, Longoria C, Schoggins JW, Savani RC, Zaki H | eLife | 34866574 | Elife | 2021 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/34866574 |
| The mechanism of RNA capping by SARS-CoV-2. | Park GJ, Osinski A, Hernandez G, Eitson JL, Majumdar A, Tonelli M, Henzler-Wildman K, Pawłowski K, Chen Z, Li Y, Schoggins JW, Tagliabracci VS | Nature | 35944563 | Nature | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35944563 |
| Functional-genomic analysis reveals intraspecies diversification of antiviral receptor transporter proteins in Xenopus laevis. | Boys IN, Mar KB, Schoggins JW | PLoS genetics | 34014925 | PLoS Genet | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/34014925 |
| Laboratory Action Plan for Emerging SARS-CoV-2 Variants. | Filkins L, SoRelle JA, Schoggins J, Park JY | Clinical chemistry | 33515256 | Clin Chem | 2021 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/33515256 |
| Death domain fold proteins in immune signaling and transcriptional regulation. | Huoh YS, Hur S | The FEBS journal | 33905163 | FEBS J | 2022 Jul | https://www.ncbi.nlm.nih.gov/pubmed/33905163 |
| Clinical outcomes and inflammatory marker levels in patients with Covid-19 and obesity at an inner-city safety net hospital. | Mostaghim A, Sinha P, Bielick C, Knudsen S, Beeram I, White LF, Apovian C, Sagar M, Hochberg NS | PloS one | 33326480 | PLoS One | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/33326480 |
| The transcription factor FoxP3 can fold into two dimerization states with divergent implications for regulatory T cell function and immune homeostasis. | Leng F, Zhang W, Ramirez RN, Leon J, Zhong Y, Hou L, Yuki K, van der Veeken J, Rudensky AY, Benoist C, Hur S | Immunity | 35926508 | Immunity | 2022 Aug 9 | https://www.ncbi.nlm.nih.gov/pubmed/35926508 |
| Immunogenicity of In Vitro-Transcribed RNA. | Mu X, Hur S | Accounts of chemical research | 34677064 | Acc Chem Res | 2021 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/34677064 |
| Filament-like Assemblies of Intracellular Nucleic Acid Sensors: Commonalities and Differences. | Cadena C, Hur S | Molecular cell | 31626748 | Mol Cell | 2019 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/31626748 |
| Cellular origins of dsRNA, their recognition and consequences. | Chen YG, Hur S | Nature reviews. Molecular cell biology | 34815573 | Nat Rev Mol Cell Biol | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/34815573 |
| Structural analysis of RIG-I-like receptors reveals ancient rules of engagement between diverse RNA helicases and TRIM ubiquitin ligases. | Kato K, Ahmad S, Zhu Z, Young JM, Mu X, Park S, Malik HS, Hur S | Molecular cell | 33373584 | Mol Cell | 2021 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/33373584 |
| Stress granules are shock absorbers that prevent excessive innate immune responses to dsRNA. | Paget M, Cadena C, Ahmad S, Wang HT, Jordan TX, Kim E, Koo B, Lyons SM, Ivanov P, tenOever B, Mu X, Hur S | Molecular cell | 37028415 | Mol Cell | 2023 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/37028415 |
| RNA polymerase inaccuracy underlies SARS-CoV-2 variants and vaccine heterogeneity. | Bradley CC, Gordon AJE, Wang C, Cooke MB, Kohrn BF, Kennedy SR, Lichtarge O, Ronca SE, Herman C | Research square | 35677076 | Res Sq | 2022 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/35677076 |
| Conjugation's Toolkit: the Roles of Nonstructural Proteins in Bacterial Sex. | Cooke MB, Herman C | Journal of bacteriology | 36847532 | J Bacteriol | 2023 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/36847532 |
| Evolutionary action of mutations reveals antimicrobial resistance genes in Escherichia coli. | Marciano DC, Wang C, Hsu TK, Bourquard T, Atri B, Nehring RB, Abel NS, Bowling EA, Chen TJ, Lurie PD, Katsonis P, Rosenberg SM, Herman C, Lichtarge O | Nature communications | 35680894 | Nat Commun | 2022 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/35680894 |
| Pathogenesis of COVID-19 from the Perspective of the Damage-Response Framework. | Pirofski LA, Casadevall A | mBio | 32616514 | mBio | 2020 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/32616514 |
| Markers of Polyfunctional SARS-CoV-2 Antibodies in Convalescent Plasma. | Natarajan H, Crowley AR, Butler SE, Xu S, Weiner JA, Bloch EM, Littlefield K, Wieland-Alter W, Connor RI, Wright PF, Benner SE, Bonny TS, Laeyendecker O, Sullivan D, Shoham S, Quinn TC, Larman HB, Casadevall A, Pekosz A, Redd AD, Tobian AAR, Ackerman ME | mBio | 33879585 | mBio | 2021 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/33879585 |
| Convalescent plasma for COVID-19 - encouraging signals of efficacy. | Casadevall A, Tobian AAR | British journal of haematology | 33524158 | Br J Haematol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33524158 |
| The Principles of Antibody Therapy for Infectious Diseases with Relevance for COVID-19. | Casadevall A, Pirofski LA, Joyner MJ | mBio | 33653885 | mBio | 2021 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/33653885 |
| Horizontal gene transfer and beyond: the delivery of biological matter by bacterial membrane vesicles to host and bacterial cells. | Wen AX, Herman C | Current opinion in microbiology | 39190937 | Curr Opin Microbiol | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39190937 |
| Asparaginyl Ligase-Catalyzed One-Step Cell Surface Modification of Red Blood Cells. | Harmand TJ, Pishesha N, Rehm FBH, Ma W, Pinney WB, Xie YJ, Ploegh HL | ACS chemical biology | 34129316 | ACS Chem Biol | 2021 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/34129316 |
| Exploring cellular biochemistry with nanobodies. | Cheloha RW, Harmand TJ, Wijne C, Schwartz TU, Ploegh HL | The Journal of biological chemistry | 32868455 | J Biol Chem | 2020 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/32868455 |
| Nanobodies in cancer. | Verhaar ER, Woodham AW, Ploegh HL | Seminars in immunology | 33272897 | Semin Immunol | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33272897 |
| MICA-specific nanobodies for diagnosis and immunotherapy of MICA(+) tumors. | Verhaar ER, Knoflook A, Pishesha N, Liu X, van Keizerswaard WJC, Wucherpfennig KW, Ploegh HL | Frontiers in immunology | 38550583 | Front Immunol | 2024 | https://www.ncbi.nlm.nih.gov/pubmed/38550583 |
| A monoclonal antibody that recognizes a unique 13-residue epitope in the cytoplasmic tail of HLA-E. | Verhaar ER, Gan J, Buhl S, Li Z, Horowitz A, Ploegh HL | Molecular immunology | 38901180 | Mol Immunol | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38901180 |
| A monoclonal anti-hemagglutinin stem antibody modified with zanamivir protects against both influenza A and B viruses. | Liu X, Balligand T, Le Gall C, Ploegh HL | Proceedings of the National Academy of Sciences of the United States of America | 40193611 | Proc Natl Acad Sci U S A | 2025 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/40193611 |
| Growth inhibition of Saccharomyces cerevisiae by SUMO-specific nanobodies. | Suresh P, Jim SZ, Sahay I, Tang AY, Wijne C, Gan J, Pishesha N, Avalos JL, Ploegh H | Scientific reports | 40419540 | Sci Rep | 2025 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/40419540 |
| Nanobodies as non-invasive imaging tools. | Rashidian M, Ploegh H | Immuno-oncology technology | 35754459 | Immunooncol Technol | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35754459 |
| A class II MHC-targeted vaccine elicits immunity against SARS-CoV-2 and its variants. | Pishesha N, Harmand TJ, Rothlauf PW, Praest P, Alexander RK, van den Doel R, Liebeskind MJ, Vakaki MA, McCaul N, Wijne C, Verhaar E, Pinney W 3rd, Heston H, Bloyet LM, Pontelli MC, Ilagan MXG, Jan Lebbink R, Buchser WJ, Wiertz EJHJ, Whelan SPJ, Ploegh HL | Proceedings of the National Academy of Sciences of the United States of America | 34654739 | Proc Natl Acad Sci U S A | 2021 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/34654739 |
| Antigen discovery tools for adaptive immune receptor repertoire research. | Bousbaine D, Ploegh HL | Current opinion in systems biology | 33195881 | Curr Opin Syst Biol | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33195881 |
| Bi-specific antibody engagers for cancer immunotherapy. | Ploegh H, Liu X, Le Gall C, Alexander R, Borgman E, Balligand T | Research square | 39149504 | Res Sq | 2024 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/39149504 |
| An armed anti-immunoglobulin light chain nanobody protects mice against influenza A and B infections. | Liu X, Balligand T, Carpenet C, Ploegh HL | Science immunology | 37352373 | Sci Immunol | 2023 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/37352373 |
| Improved GPCR ligands from nanobody tethering. | Cheloha RW, Fischer FA, Woodham AW, Daley E, Suminski N, Gardella TJ, Ploegh HL | Nature communications | 32350260 | Nat Commun | 2020 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/32350260 |
| A conserved Bacteroidetes antigen induces anti-inflammatory intestinal T lymphocytes. | Bousbaine D, Fisch LI, London M, Bhagchandani P, Rezende de Castro TB, Mimee M, Olesen S, Reis BS, VanInsberghe D, Bortolatto J, Poyet M, Cheloha RW, Sidney J, Ling J, Gupta A, Lu TK, Sette A, Alm EJ, Moon JJ, Victora GD, Mucida D, Ploegh HL, Bilate AM | Science (New York, N.Y.) | 35926021 | Science | 2022 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/35926021 |
| Induction of antigen-specific tolerance by nanobody-antigen adducts that target class-II major histocompatibility complexes. | Pishesha N, Harmand T, Smeding LY, Ma W, Ludwig LS, Janssen R, Islam A, Xie YJ, Fang T, McCaul N, Pinney W 3rd, Sugito HR, Rossotti MA, Gonzalez-Sapienza G, Ploegh HL | Nature biomedical engineering | 34127819 | Nat Biomed Eng | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34127819 |
| Nanobody-based CAR NK cells for possible immunotherapy of MICA(+) tumors. | Verhaar ER, van Keizerswaard WJC, Knoflook A, Balligand T, Ploegh HL | PNAS nexus | 38756234 | PNAS Nexus | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/38756234 |
| USP16 is an ISG15 cross-reactive deubiquitinase that targets pro-ISG15 and ISGylated proteins involved in metabolism. | Gan J, Pinto-Fernández A, Flierman D, Akkermans JJLL, O'Brien DP, Greenwood H, Scott HC, Fritz G, Knobeloch KP, Neefjes J, van Dam H, Ovaa H, Ploegh HL, Kessler BM, Geurink PP, Sapmaz A | Proceedings of the National Academy of Sciences of the United States of America | 38055744 | Proc Natl Acad Sci U S A | 2023 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/38055744 |
| A nanobody that binds to the backside of the ubiquitin conjugating enzyme Ube2G2 differentially affects interactions with its partner E3 Ligases. | Suresh P, Wijne C, Sun ZJ, Becht N, Sahay I, Pishesha N, Ploegh H | Communications biology | 40234692 | Commun Biol | 2025 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/40234692 |
| Cooperative defenses during enteropathogenic infection. | Troha K, Ayres JS | Current opinion in microbiology | 34847524 | Curr Opin Microbiol | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/34847524 |
| Microbiota Metabolites in Health and Disease. | McCarville JL, Chen GY, Cuevas VD, Troha K, Ayres JS | Annual review of immunology | 32340573 | Annu Rev Immunol | 2020 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/32340573 |
| Metabolic Adaptations to Infections at the Organismal Level. | Troha K, Ayres JS | Trends in immunology | 31959515 | Trends Immunol | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31959515 |
| Cooperation between physiological defenses and immune resistance produces asymptomatic carriage of a lethal bacterial pathogen. | Chen GY, Thorup NR, Miller AJ, Li YC, Ayres JS | bioRxiv : the preprint server for biology | 36711884 | bioRxiv | 2023 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/36711884 |
| Adipose triglyceride lipase mediates lipolysis and lipid mobilization in response to iron-mediated negative energy balance. | Romero AR, Mu A, Ayres JS | iScience | 35265813 | iScience | 2022 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/35265813 |
| Chronic Leptin Deficiency Improves Tolerance of Physiological Damage and Host-Pathogen Cooperation during Yersinia pseudotuberculosis Infection. | Sanchez KK, Troha K, Mu A, Redford SE, McCarville JL, Insenga A, Stengel S, Lee YM, Ayres JS | Infection and immunity | 35924898 | Infect Immun | 2022 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/35924898 |
| Surviving COVID-19: A disease tolerance perspective. | Ayres JS | Science advances | 32494691 | Sci Adv | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32494691 |
| Beyond tug-of-war: Iron metabolism in cooperative host-microbe interactions. | Chen GY, Ayres JS | PLoS pathogens | 32785251 | PLoS Pathog | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32785251 |
| The Biology of Physiological Health. | Ayres JS | Cell | 32302569 | Cell | 2020 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/32302569 |
| Fluoxetine promotes immunometabolic defenses to mediate host-pathogen cooperation during sepsis. | Gallant RM, Snyder JM, Ayres JS | bioRxiv : the preprint server for biology | 38013994 | bioRxiv | 2023 Nov 18 | https://www.ncbi.nlm.nih.gov/pubmed/38013994 |
| Cooperation between physiological defenses and immune resistance produces asymptomatic carriage of a lethal bacterial pathogen. | Chen GY, Thorup NR, Miller AJ, Li YC, Ayres JS | Science advances | 37352357 | Sci Adv | 2023 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/37352357 |
| CD4+ T cells regulate sickness-induced anorexia and fat wasting during a chronic parasitic infection. | Redford SE, Varanasi SK, Sanchez KK, Thorup NR, Ayres JS | Cell reports | 37490905 | Cell Rep | 2023 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/37490905 |
| Fluoxetine promotes IL-10-dependent metabolic defenses to protect from sepsis-induced lethality. | Gallant RM, Sanchez KK, Joulia E, Snyder JM, Metallo CM, Ayres JS | Science advances | 39951524 | Sci Adv | 2025 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/39951524 |
| Immunometabolism of infections. | Ayres JS | Nature reviews. Immunology | 31892735 | Nat Rev Immunol | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31892735 |
| Age-dependent roles of cardiac remodeling in sepsis defense and pathogenesis. | Sanchez KK, McCarville JL, Stengel SJ, Snyder JM, Williams AE, Ayres JS | bioRxiv : the preprint server for biology | 36993409 | bioRxiv | 2023 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/36993409 |
| Studying interactions between dendritic cells and T cells in vivo. | Chudnovskiy A, Pasqual G, Victora GD | Current opinion in immunology | 30884422 | Curr Opin Immunol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30884422 |
| Clonal replacement sustains long-lived germinal centers primed by respiratory viruses. | de Carvalho RVH, Ersching J, Barbulescu A, Hobbs A, Castro TBR, Mesin L, Jacobsen JT, Phillips BK, Hoffmann HH, Parsa R, Canesso MCC, Nowosad CR, Feng A, Leist SR, Baric RS, Yang E, Utz PJ, Victora GD | Cell | 36565697 | Cell | 2023 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/36565697 |
| Opposing effects of pre-existing antibody and memory T cell help on the dynamics of recall germinal centers. | Schiepers A, van 't Wout MFL, Hobbs A, Mesin L, Victora GD | bioRxiv : the preprint server for biology | 38168231 | bioRxiv | 2023 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/38168231 |
| Monitoring the Interaction Between Dendritic Cells and T Cells In Vivo with LIPSTIC. | Pasqual G, Chudnovskiy A, Victora GD | Methods in molecular biology (Clifton, N.J.) | 36905509 | Methods Mol Biol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/36905509 |
| Expression of Foxp3 by T follicular helper cells in end-stage germinal centers. | Jacobsen JT, Hu W, R Castro TB, Solem S, Galante A, Lin Z, Allon SJ, Mesin L, Bilate AM, Schiepers A, Shalek AK, Rudensky AY, Victora GD | Science (New York, N.Y.) | 34437125 | Science | 2021 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/34437125 |
| Universal recording of immune cell interactions in vivo. | Nakandakari-Higa S, Walker S, Canesso MCC, van der Heide V, Chudnovskiy A, Kim DY, Jacobsen JT, Parsa R, Bilanovic J, Parigi SM, Fiedorczuk K, Fuchs E, Bilate AM, Pasqual G, Mucida D, Kamphorst AO, Pritykin Y, Victora GD | Nature | 38448581 | Nature | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38448581 |
| Restricted Clonality and Limited Germinal Center Reentry Characterize Memory B Cell Reactivation by Boosting. | Mesin L, Schiepers A, Ersching J, Barbulescu A, Cavazzoni CB, Angelini A, Okada T, Kurosaki T, Victora GD | Cell | 31866068 | Cell | 2020 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/31866068 |
| Identification of antigen-presenting cell-T cell interactions driving immune responses to food. | Campos Canesso MC, de Castro TBR, Nakandakari-Higa S, Lockhart A, Luehr J, Bortolatto J, Parsa R, Esterházy D, Lyu M, Liu TT, Murphy KM, Sonnenberg GF, Reis BS, Victora GD, Mucida D | Science (New York, N.Y.) | 39700315 | Science | 2025 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/39700315 |
| Tunable dynamics of B cell selection in gut germinal centres. | Nowosad CR, Mesin L, Castro TBR, Wichmann C, Donaldson GP, Araki T, Schiepers A, Lockhart AAK, Bilate AM, Mucida D, Victora GD | Nature | 33116306 | Nature | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33116306 |
| Cyclin D3 drives inertial cell cycling in dark zone germinal center B cells. | Pae J, Ersching J, Castro TBR, Schips M, Mesin L, Allon SJ, Ordovas-Montanes J, Mlynarczyk C, Melnick A, Efeyan A, Shalek AK, Meyer-Hermann M, Victora GD | The Journal of experimental medicine | 33332554 | J Exp Med | 2021 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/33332554 |
| Molecular fate-mapping of serum antibody responses to repeat immunization. | Schiepers A, van 't Wout MFL, Greaney AJ, Zang T, Muramatsu H, Lin PJC, Tam YK, Mesin L, Starr TN, Bieniasz PD, Pardi N, Bloom JD, Victora GD | Nature | 36646114 | Nature | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36646114 |
| Proximity-dependent labeling identifies dendritic cells that drive the tumor-specific CD4(+) T cell response. | Chudnovskiy A, Castro TBR, Nakandakari-Higa S, Cui A, Lin CH, Sade-Feldman M, Phillips BK, Pae J, Mesin L, Bortolatto J, Schweitzer LD, Pasqual G, Lu LF, Hacohen N, Victora GD | Science immunology | 39365874 | Sci Immunol | 2024 Oct 4 | https://www.ncbi.nlm.nih.gov/pubmed/39365874 |
| Opposing effects of pre-existing antibody and memory T cell help on the dynamics of recall germinal centers. | Schiepers A, Van't Wout MFL, Hobbs A, Mesin L, Victora GD | Immunity | 38838672 | Immunity | 2024 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/38838672 |
| Immunological implications of pregnancy-induced microchimerism. | Kinder JM, Stelzer IA, Arck PC, Way SS | Nature reviews. Immunology | 28480895 | Nat Rev Immunol | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28480895 |
| Commensal Fungi Recapitulate the Protective Benefits of Intestinal Bacteria. | Jiang TT, Shao TY, Ang WXG, Kinder JM, Turner LH, Pham G, Whitt J, Alenghat T, Way SS | Cell host & microbe | 29174402 | Cell Host Microbe | 2017 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/29174402 |
| IL-17-producing γδ T cells protect against Clostridium difficile infection. | Chen YS, Chen IB, Pham G, Shao TY, Bangar H, Way SS, Haslam DB | The Journal of clinical investigation | 31990686 | J Clin Invest | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/31990686 |
| Maternal-fetal conflict averted by progesterone- induced FOXP3+ regulatory T cells. | Severance AL, Kinder JM, Xin L, Burg AR, Shao TY, Pham G, Tilburgs T, Goodman WA, Mesiano S, Way SS | iScience | 35637736 | iScience | 2022 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/35637736 |
| Friendly fungi: symbiosis with commensal Candida albicans. | Shao TY, Haslam DB, Bennett RJ, Way SS | Trends in immunology | 35961916 | Trends Immunol | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/35961916 |
| Mycobacterium tuberculosis-specific CD4+ and CD8+ T cells differ in their capacity to recognize infected macrophages. | Yang JD, Mott D, Sutiwisesak R, Lu YJ, Raso F, Stowell B, Babunovic GH, Lee J, Carpenter SM, Way SS, Fortune SM, Behar SM | PLoS pathogens | 29782535 | PLoS Pathog | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29782535 |
| Fungus Among Us: The Frenemies Within. | Aggor FEY, Way SS, Gaffen SL | Trends in immunology | 31053496 | Trends Immunol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31053496 |
| Intestinal epithelial HDAC3 and MHC class II coordinate microbiota-specific immunity. | Eshleman EM, Shao TY, Woo V, Rice T, Engleman L, Didriksen BJ, Whitt J, Haslam DB, Way SS, Alenghat T | The Journal of clinical investigation | 36602872 | J Clin Invest | 2023 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/36602872 |
| Resilient anatomy and local plasticity of naive and stress haematopoiesis. | Wu Q, Zhang J, Kumar S, Shen S, Kincaid M, Johnson CB, Zhang YS, Turcotte R, Alt C, Ito K, Homan S, Sherman BE, Shao TY, Slaughter A, Weinhaus B, Song B, Filippi MD, Grimes HL, Lin CP, Ito K, Way SS, Kofron JM, Lucas D | Nature | 38509363 | Nature | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38509363 |
| Immunological Basis for Recurrent Fetal Loss and Pregnancy Complications. | Deshmukh H, Way SS | Annual review of pathology | 30183507 | Annu Rev Pathol | 2019 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/30183507 |
| A disconnect between precursor frequency, expansion potential, and site-specific CD4+ T cell responses in aged mice. | Deshpande NR, Uhrlaub JL, Way SS, Nikolich-Žugich J, Kuhns MS | PloS one | 29864157 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29864157 |
| Epidemiology of Pregnancy Complications Through the Lens of Immunological Memory. | Gregory EJ, Liu J, Miller-Handley H, Kinder JM, Way SS | Frontiers in immunology | 34248991 | Front Immunol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34248991 |
| Tacrolimus exposure windows responsible for Listeria monocytogenes infection susceptibility. | Miller-Handley H, Erickson JJ, Gregory EJ, Prasanphanich NS, Shao TY, Way SS | Transplant infectious disease : an official journal of the Transplantation Society | 34057792 | Transpl Infect Dis | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34057792 |
| Preconceptual Zika virus asymptomatic infection protects against secondary prenatal infection. | Turner LH, Kinder JM, Wilburn A, D'Mello RJ, Braunlin MR, Jiang TT, Pham G, Way SS | PLoS pathogens | 29145516 | PLoS Pathog | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/29145516 |
| CD8(+) T Cell Functional Exhaustion Overrides Pregnancy-Induced Fetal Antigen Alloimmunization. | Kinder JM, Turner LH, Stelzer IA, Miller-Handley H, Burg A, Shao TY, Pham G, Way SS | Cell reports | 32579916 | Cell Rep | 2020 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/32579916 |
| Vaccination strategies to enhance immunity in neonates. | Kollmann TR, Marchant A, Way SS | Science (New York, N.Y.) | 32381718 | Science | 2020 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/32381718 |
| Mouse models of neutropenia reveal progenitor-stage-specific defects. | Muench DE, Olsson A, Ferchen K, Pham G, Serafin RA, Chutipongtanate S, Dwivedi P, Song B, Hay S, Chetal K, Trump-Durbin LR, Mookerjee-Basu J, Zhang K, Yu JC, Lutzko C, Myers KC, Nazor KL, Greis KD, Kappes DJ, Way SS, Salomonis N, Grimes HL | Nature | 32494068 | Nature | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32494068 |
| Immunology of the Uterine and Vaginal Mucosae. | Zhou JZ, Way SS, Chen K | Trends in immunology | 29433961 | Trends Immunol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29433961 |
| Immunology of Uterine and Vaginal Mucosae: (Trends in Immunology 39, 302-314, 2018). | Zhou JZ, Way SS, Chen K | Trends in immunology | 29530651 | Trends Immunol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29530651 |
| TCR Affinity Biases Th Cell Differentiation by Regulating CD25, Eef1e1, and Gbp2. | Kotov DI, Mitchell JS, Pengo T, Ruedl C, Way SS, Langlois RA, Fife BT, Jenkins MK | Journal of immunology (Baltimore, Md. : 1950) | 30858199 | J Immunol | 2019 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/30858199 |
| Commensal Candida albicans Positively Calibrates Systemic Th17 Immunological Responses. | Shao TY, Ang WXG, Jiang TT, Huang FS, Andersen H, Kinder JM, Pham G, Burg AR, Ruff B, Gonzalez T, Khurana Hershey GK, Haslam DB, Way SS | Cell host & microbe | 30870622 | Cell Host Microbe | 2019 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/30870622 |
| The induction of preterm labor in rhesus macaques is determined by the strength of immune response to intrauterine infection. | Cappelletti M, Presicce P, Feiyang M, Senthamaraikannan P, Miller LA, Pellegrini M, Sim MS, Jobe AH, Divanovic S, Way SS, Chougnet CA, Kallapur SG | PLoS biology | 34495952 | PLoS Biol | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/34495952 |
| Systematic reconstruction of an effector-gene network reveals determinants of Salmonella cellular and tissue tropism. | Chen D, Burford WB, Pham G, Zhang L, Alto LT, Ertelt JM, Winter MG, Winter SE, Way SS, Alto NM | Cell host & microbe | 34536347 | Cell Host Microbe | 2021 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/34536347 |
| Preconceptual Priming Overrides Susceptibility to Escherichia coli Systemic Infection during Pregnancy. | Prasanphanich NS, Gregory EJ, Erickson JJ, Miller-Handley H, Kinder JM, Way SS | mBio | 33622714 | mBio | 2021 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/33622714 |
| Kruppel-like factor 2+ CD4 T cells avert microbiota-induced intestinal inflammation. | Shao TY, Jiang TT, Stevens J, Russi AE, Troutman TD, Bernieh A, Pham G, Erickson JJ, Eshleman EM, Alenghat T, Jameson SC, Hogquist KA, Weaver CT, Haslam DB, Deshmukh H, Way SS | Cell reports | 37889750 | Cell Rep | 2023 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/37889750 |
| Persistent Zika Virus Clinical Susceptibility despite Reduced Viral Burden in Mice with Expanded Virus-Specific CD8(+) T Cells Primed by Recombinant Listeria monocytogenes. | Burg AR, Erickson JJ, Turner LH, Pham G, Kinder JM, Way SS | Journal of immunology (Baltimore, Md. : 1950) | 32522837 | J Immunol | 2020 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/32522837 |
| Pregnancy enables antibody protection against intracellular infection. | Erickson JJ, Archer-Hartmann S, Yarawsky AE, Miller JLC, Seveau S, Shao TY, Severance AL, Miller-Handley H, Wu Y, Pham G, Wasik BR, Parrish CR, Hu YC, Lau JTY, Azadi P, Herr AB, Way SS | Nature | 35676476 | Nature | 2022 Jun | https://www.ncbi.nlm.nih.gov/pubmed/35676476 |
| Candida albicans oscillating UME6 expression during intestinal colonization primes systemic Th17 protective immunity. | Shao TY, Kakade P, Witchley JN, Frazer C, Murray KL, Ene IV, Haslam DB, Hagan T, Noble SM, Bennett RJ, Way SS | Cell reports | 35584674 | Cell Rep | 2022 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/35584674 |
| Differential IL-2 expression defines developmental fates of follicular versus nonfollicular helper T cells. | DiToro D, Winstead CJ, Pham D, Witte S, Andargachew R, Singer JR, Wilson CG, Zindl CL, Luther RJ, Silberger DJ, Weaver BT, Kolawole EM, Martinez RJ, Turner H, Hatton RD, Moon JJ, Way SS, Evavold BD, Weaver CT | Science (New York, N.Y.) | 30213884 | Science | 2018 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/30213884 |
| Declining responsiveness to influenza vaccination with progression of human pregnancy. | Schlaudecker EP, Ambroggio L, McNeal MM, Finkelman FD, Way SS | Vaccine | 29941326 | Vaccine | 2018 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/29941326 |
| In situ mapping identifies distinct vascular niches for myelopoiesis. | Zhang J, Wu Q, Johnson CB, Pham G, Kinder JM, Olsson A, Slaughter A, May M, Weinhaus B, D'Alessandro A, Engel JD, Jiang JX, Kofron JM, Huang LF, Prasath VBS, Way SS, Salomonis N, Grimes HL, Lucas D | Nature | 33568812 | Nature | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33568812 |
| Maternal Vaccination to Prevent Adverse Pregnancy Outcomes: An Underutilized Molecular Immunological Intervention? | Giles ML, Way SS, Marchant A, Aghaepour N, James T, Schaltz-Buchholzer F, Zazara D, Arck P, Kollmann TR | Journal of molecular biology | 37080422 | J Mol Biol | 2023 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/37080422 |
| Immune suppression sustained allograft acceptance requires PD1 inhibition of CD8+ T cells. | Miller-Handley H, Harper G, Pham G, Turner LH, Shao TY, Russi AE, Erickson JJ, Ford ML, Araki K, Way SS | Journal of immunology (Baltimore, Md. : 1950) | 40073258 | J Immunol | 2025 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/40073258 |
| Reproductive outcomes after pregnancy-induced displacement of preexisting microchimeric cells. | Shao TY, Kinder JM, Harper G, Pham G, Peng Y, Liu J, Gregory EJ, Sherman BE, Wu Y, Iten AE, Hu YC, Russi AE, Erickson JJ, Miller-Handley H, Way SS | Science (New York, N.Y.) | 37733857 | Science | 2023 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/37733857 |
| Human CTP synthase filament structure reveals the active enzyme conformation. | Lynch EM, Hicks DR, Shepherd M, Endrizzi JA, Maker A, Hansen JM, Barry RM, Gitai Z, Baldwin EP, Kollman JM | Nature structural & molecular biology | 28459447 | Nat Struct Mol Biol | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28459447 |
| Human SHMT inhibitors reveal defective glycine import as a targetable metabolic vulnerability of diffuse large B-cell lymphoma. | Ducker GS, Ghergurovich JM, Mainolfi N, Suri V, Jeong SK, Hsin-Jung Li S, Friedman A, Manfredi MG, Gitai Z, Kim H, Rabinowitz JD | Proceedings of the National Academy of Sciences of the United States of America | 29073064 | Proc Natl Acad Sci U S A | 2017 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/29073064 |
| The curved shape of Caulobacter crescentus enhances surface colonization in flow. | Persat A, Stone HA, Gitai Z | Nature communications | 24806788 | Nat Commun | 2014 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/24806788 |
| How to Build a Bacterial Cell: MreB as the Foreman of E. coli Construction. | Shi H, Bratton BP, Gitai Z, Huang KC | Cell | 29522748 | Cell | 2018 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/29522748 |
| A Dual-Mechanism Antibiotic Kills Gram-Negative Bacteria and Avoids Drug Resistance. | Martin JK 2nd, Sheehan JP, Bratton BP, Moore GM, Mateus A, Li SH, Kim H, Rabinowitz JD, Typas A, Savitski MM, Wilson MZ, Gitai Z | Cell | 32497502 | Cell | 2020 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/32497502 |
| The effect of antibiotics on protein diffusion in the Escherichia coli cytoplasmic membrane. | Liu GS, Bratton BP, Gitai Z, Shaevitz JW | PloS one | 28977034 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28977034 |
| Bacterial viability in the built environment of the home. | Xie J, Acosta EM, Gitai Z | PloS one | 37939059 | PLoS One | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37939059 |
| The mechanical world of bacteria. | Persat A, Nadell CD, Kim MK, Ingremeau F, Siryaporn A, Drescher K, Wingreen NS, Bassler BL, Gitai Z, Stone HA | Cell | 26000479 | Cell | 2015 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/26000479 |
| Single-cell massively-parallel multiplexed microbial sequencing (M3-seq) identifies rare bacterial populations and profiles phage infection. | Wang B, Lin AE, Yuan J, Novak KE, Koch MD, Wingreen NS, Adamson B, Gitai Z | Nature microbiology | 37653008 | Nat Microbiol | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37653008 |
| Surface association sensitizes Pseudomonas aeruginosa to quorum sensing. | Chuang SK, Vrla GD, Fröhlich KS, Gitai Z | Nature communications | 31511506 | Nat Commun | 2019 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/31511506 |
| Light-based control of metabolic flux through assembly of synthetic organelles. | Zhao EM, Suek N, Wilson MZ, Dine E, Pannucci NL, Gitai Z, Avalos JL, Toettcher JE | Nature chemical biology | 31086330 | Nat Chem Biol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31086330 |
| Pseudomonas aeruginosa clinical blood isolates display significant phenotypic variability. | Scheffler RJ, Bratton BP, Gitai Z | PloS one | 35793311 | PLoS One | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35793311 |
| Cytotoxic alkyl-quinolones mediate surface-induced virulence in Pseudomonas aeruginosa. | Vrla GD, Esposito M, Zhang C, Kang Y, Seyedsayamdost MR, Gitai Z | PLoS pathogens | 32925969 | PLoS Pathog | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32925969 |
| Modeling microbial metabolic trade-offs in a chemostat. | Li Z, Liu B, Li SH, King CG, Gitai Z, Wingreen NS | PLoS computational biology | 32857772 | PLoS Comput Biol | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32857772 |
| Pseudomonas aeruginosa detachment from surfaces via a self-made small molecule. | Scheffler RJ, Sugimoto Y, Bratton BP, Ellison CK, Koch MD, Donia MS, Gitai Z | The Journal of biological chemistry | 33450229 | J Biol Chem | 2021 Jan-Jun | https://www.ncbi.nlm.nih.gov/pubmed/33450229 |
| Bacterial DNA on the skin surface overrepresents the viable skin microbiome. | Acosta EM, Little KA, Bratton BP, Lopez JG, Mao X, Payne AS, Donia M, Devenport D, Gitai Z | eLife | 37389570 | Elife | 2023 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/37389570 |
| A scaffold protein connects type IV pili with the Chp chemosensory system to mediate activation of virulence signaling in Pseudomonas aeruginosa. | Inclan YF, Persat A, Greninger A, Von Dollen J, Johnson J, Krogan N, Gitai Z, Engel JN | Molecular microbiology | 27145134 | Mol Microbiol | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27145134 |
| Colonization, competition, and dispersal of pathogens in fluid flow networks. | Siryaporn A, Kim MK, Shen Y, Stone HA, Gitai Z | Current biology : CB | 25843031 | Curr Biol | 2015 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/25843031 |
| A Periplasmic Polymer Curves Vibrio cholerae and Promotes Pathogenesis. | Bartlett TM, Bratton BP, Duvshani A, Miguel A, Sheng Y, Martin NR, Nguyen JP, Persat A, Desmarais SM, VanNieuwenhze MS, Huang KC, Zhu J, Shaevitz JW, Gitai Z | Cell | 28086090 | Cell | 2017 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/28086090 |
| Acinetobacter baylyi regulates type IV pilus synthesis by employing two extension motors and a motor protein inhibitor. | Ellison CK, Dalia TN, Klancher CA, Shaevitz JW, Gitai Z, Dalia AB | Nature communications | 34145281 | Nat Commun | 2021 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/34145281 |
| CrvA and CrvB form a curvature-inducing module sufficient to induce cell-shape complexity in Gram-negative bacteria. | Martin NR, Blackman E, Bratton BP, Chase KJ, Bartlett TM, Gitai Z | Nature microbiology | 34183815 | Nat Microbiol | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34183815 |
| Global and gene-specific translational regulation in Escherichia coli across different conditions. | Zhang D, Li SH, King CG, Wingreen NS, Gitai Z, Li Z | PLoS computational biology | 36264977 | PLoS Comput Biol | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/36264977 |
| Subcellular localization of type IV pili regulates bacterial multicellular development. | Ellison CK, Fei C, Dalia TN, Wingreen NS, Dalia AB, Shaevitz JW, Gitai Z | Nature communications | 36284096 | Nat Commun | 2022 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/36284096 |
| Microfluidic-based transcriptomics reveal force-independent bacterial rheosensing. | Sanfilippo JE, Lorestani A, Koch MD, Bratton BP, Siryaporn A, Stone HA, Gitai Z | Nature microbiology | 31086313 | Nat Microbiol | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31086313 |
| Both clinical and environmental Caulobacter species are virulent in the Galleria mellonella infection model. | Moore GM, Gitai Z | PloS one | 32163465 | PLoS One | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32163465 |
| Algal p-coumaric acid induces oxidative stress and siderophore biosynthesis in the bacterial symbiont Phaeobacter inhibens. | Wang R, Gallant É, Wilson MZ, Wu Y, Li A, Gitai Z, Seyedsayamdost MR | Cell chemical biology | 34437838 | Cell Chem Biol | 2022 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/34437838 |
| Type IV pili mechanochemically regulate virulence factors in Pseudomonas aeruginosa. | Persat A, Inclan YF, Engel JN, Stone HA, Gitai Z | Proceedings of the National Academy of Sciences of the United States of America | 26041805 | Proc Natl Acad Sci U S A | 2015 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/26041805 |
| Mode of action and resistance studies unveil new roles for tropodithietic acid as an anticancer agent and the γ-glutamyl cycle as a proton sink. | Wilson MZ, Wang R, Gitai Z, Seyedsayamdost MR | Proceedings of the National Academy of Sciences of the United States of America | 26802120 | Proc Natl Acad Sci U S A | 2016 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/26802120 |
| Post-transcriptional gene regulation by an Hfq-independent small RNA in Caulobacter crescentus. | Fröhlich KS, Förstner KU, Gitai Z | Nucleic acids research | 30165530 | Nucleic Acids Res | 2018 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/30165530 |
| Mechanical Genomic Studies Reveal the Role of d-Alanine Metabolism in Pseudomonas aeruginosa Cell Stiffness. | Trivedi RR, Crooks JA, Auer GK, Pendry J, Foik IP, Siryaporn A, Abbott NL, Gitai Z, Weibel DB | mBio | 30206169 | mBio | 2018 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/30206169 |
| Escherichia coli translation strategies differ across carbon, nitrogen and phosphorus limitation conditions. | Li SH, Li Z, Park JO, King CG, Rabinowitz JD, Wingreen NS, Gitai Z | Nature microbiology | 30038306 | Nat Microbiol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30038306 |
| Competitive binding of independent extension and retraction motors explains the quantitative dynamics of type IV pili. | Koch MD, Fei C, Wingreen NS, Shaevitz JW, Gitai Z | Proceedings of the National Academy of Sciences of the United States of America | 33593905 | Proc Natl Acad Sci U S A | 2021 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/33593905 |
| Pseudomonas aeruginosa distinguishes surfaces by stiffness using retraction of type IV pili. | Koch MD, Black ME, Han E, Shaevitz JW, Gitai Z | Proceedings of the National Academy of Sciences of the United States of America | 35561220 | Proc Natl Acad Sci U S A | 2022 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/35561220 |
| Dynamic post-translational modification profiling of Mycobacterium tuberculosis-infected primary macrophages. | Budzik JM, Swaney DL, Jimenez-Morales D, Johnson JR, Garelis NE, Repasy T, Roberts AW, Popov LM, Parry TJ, Pratt D, Ideker T, Krogan NJ, Cox JS | eLife | 31951200 | Elife | 2020 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/31951200 |
| Tax1bp1 enhances bacterial virulence and promotes inflammatory responses during Mycobacterium tuberculosis infection of alveolar macrophages. | Chin J, Abeydeera N, Repasy T, Rivera-Lugo R, Mitchell G, Nguyen VQ, Zheng W, Richards A, Swaney DL, Krogan NJ, Ernst JD, Cox JS, Budzik JM | bioRxiv : the preprint server for biology | 39763950 | bioRxiv | 2024 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/39763950 |
| TRIM14 Is a Key Regulator of the Type I IFN Response during Mycobacterium tuberculosis Infection. | Hoffpauir CT, Bell SL, West KO, Jing T, Wagner AR, Torres-Odio S, Cox JS, West AP, Li P, Patrick KL, Watson RO | Journal of immunology (Baltimore, Md. : 1950) | 32404352 | J Immunol | 2020 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/32404352 |
| An Mtb-Human Protein-Protein Interaction Map Identifies a Switch between Host Antiviral and Antibacterial Responses. | Penn BH, Netter Z, Johnson JR, Von Dollen J, Jang GM, Johnson T, Ohol YM, Maher C, Bell SL, Geiger K, Golovkine G, Du X, Choi A, Parry T, Mohapatra BC, Storck MD, Band H, Chen C, Jäger S, Shales M, Portnoy DA, Hernandez R, Coscoy L, Cox JS, Krogan NJ | Molecular cell | 30118682 | Mol Cell | 2018 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/30118682 |
| Ribosome Rescue Inhibitors Kill Actively Growing and Nonreplicating Persister Mycobacterium tuberculosis Cells. | Alumasa JN, Manzanillo PS, Peterson ND, Lundrigan T, Baughn AD, Cox JS, Keiler KC | ACS infectious diseases | 28762275 | ACS Infect Dis | 2017 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/28762275 |
| Cas9(+) conditionally-immortalized macrophages as a tool for bacterial pathogenesis and beyond. | Roberts AW, Popov LM, Mitchell G, Ching KL, Licht DJ, Golovkine G, Barton GM, Cox JS | eLife | 31204998 | Elife | 2019 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/31204998 |
| Elimination of vision-guided target attraction in Aedes aegypti using CRISPR. | Zhan Y, Alonso San Alberto D, Rusch C, Riffell JA, Montell C | Current biology : CB | 34331858 | Curr Biol | 2021 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/34331858 |
| Neuropeptide F regulates courtship in Drosophila through a male-specific neuronal circuit. | Liu W, Ganguly A, Huang J, Wang Y, Ni JD, Gurav AS, Aguilar MA, Montell C | eLife | 31403399 | Elife | 2019 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/31403399 |
| Neuromodulation of Courtship Drive through Tyramine-Responsive Neurons in the Drosophila Brain. | Huang J, Liu W, Qi YX, Luo J, Montell C | Current biology : CB | 27498566 | Curr Biol | 2016 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/27498566 |
| A Temperature Gradient Assay to Determine Thermal Preferences of Drosophila Larvae. | Liu J, Sokabe T, Montell C | Journal of visualized experiments : JoVE | 29985331 | J Vis Exp | 2018 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/29985331 |
| Unconventional Roles of Opsins. | Leung NY, Montell C | Annual review of cell and developmental biology | 28598695 | Annu Rev Cell Dev Biol | 2017 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/28598695 |
| The Role of Y Chromosome Genes in Male Fertility in Drosophila melanogaster. | Zhang J, Luo J, Chen J, Dai J, Montell C | Genetics | 32404399 | Genetics | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32404399 |
| Suppression of female fertility in Aedes aegypti with a CRISPR-targeted male-sterile mutation. | Chen J, Luo J, Wang Y, Gurav AS, Li M, Akbari OS, Montell C | Proceedings of the National Academy of Sciences of the United States of America | 34031258 | Proc Natl Acad Sci U S A | 2021 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/34031258 |
| Differential regulation of the Drosophila sleep homeostat by circadian and arousal inputs. | Ni JD, Gurav AS, Liu W, Ogunmowo TH, Hackbart H, Elsheikh A, Verdegaal AA, Montell C | eLife | 30719975 | Elife | 2019 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/30719975 |
| Pseudotyping of HIV-1 with Human T-Lymphotropic Virus 1 (HTLV-1) Envelope Glycoprotein during HIV-1-HTLV-1 Coinfection Facilitates Direct HIV-1 Infection of Female Genital Epithelial Cells: Implications for Sexual Transmission of HIV-1. | Tang Y, George AM, Petrechko O, Nouvet FJ, Sweet SD, Tanaka Y, Imbiakha BS, Jiang G, Gao W, Anastos K, Hildreth JEK | mSphere | 29624497 | mSphere | 2018 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/29624497 |
| Reduced removal of waste products from energy metabolism takes center stage in human brain aging. | Mangia S, DiNuzzo M, Ponticorvo S, Dienel GA, Behar KL, Benveniste H, Hyder F, Giove F, Herculano-Houzel S, Petroff OA, Eberly LE, Filip P, Michaeli S, Rothman DL | Scientific reports | 40057554 | Sci Rep | 2025 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/40057554 |
| A Bird's-Eye View of Glycolytic Upregulation in Activated Brain: The Major Fate of Lactate Is Release From Activated Tissue, Not Shuttling to Nearby Neurons. | Dienel GA, Rothman DL, Mangia S | Journal of neurochemistry | 40476345 | J Neurochem | 2025 Jun | https://www.ncbi.nlm.nih.gov/pubmed/40476345 |
| Cloud Computing to Enable Wearable-Driven Longitudinal Hemodynamic Maps. | Tanade C, Rakestraw E, Ladd W, Draeger E, Randles A | International Conference for High Performance Computing, Networking, Storage and Analysis : [proceedings]. SC (Conference : Supercomputing) | 38939612 | Int Conf High Perform Comput Netw Storage Anal | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/38939612 |
| Investigating the Influence of Heterogeneity Within Cell Types on Microvessel Network Transport. | Nan J, Roychowdhury S, Randles A | Cellular and molecular bioengineering | 38099216 | Cell Mol Bioeng | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/38099216 |
| Optimizing Temporal Waveform Analysis: A Novel Pipeline for Efficient Characterization of Left Coronary Artery Velocity Profiles. | Geddes JR, Randles A | ArXiv | 38410654 | ArXiv | 2024 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/38410654 |
| Modeling the effect of patient size on cerebral perfusion during veno-arterial extracorporeal membrane oxygenation. | Feiger B, Jensen CW, Bryner BS, Segars WP, Randles A | Perfusion | 37395266 | Perfusion | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37395266 |
| CeLab, a microfluidic platform for the study of life history traits, reveals metformin and SGK-1 regulation of longevity and reproductive span. | Sohrabi S, Cota V, Murphy CT | Lab on a chip | 37221962 | Lab Chip | 2023 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/37221962 |
| Neuronal activation of G(αq) EGL-30/GNAQ late in life rejuvenates cognition across species. | Stevenson ME, Bieri G, Kaletsky R, St Ange J, Remesal L, Pratt KJB, Zhou S, Weng Y, Murphy CT, Villeda SA | Cell reports | 37713310 | Cell Rep | 2023 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/37713310 |
| Stress-Induced Mutagenesis, Gambler Cells, and Stealth Targeting Antibiotic-Induced Evolution. | Pribis JP, Zhai Y, Hastings PJ, Rosenberg SM | mBio | 35658528 | mBio | 2022 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/35658528 |
| Genomic mapping of DNA-repair reaction intermediates in living cells with engineered DNA structure-trap proteins. | Liu J, Mei Q, Nimer S, Fitzgerald DM, Rosenberg SM | Methods in enzymology | 34776211 | Methods Enzymol | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/34776211 |
| Drugging evolution of antibiotic resistance at a regulatory network hub. | Zhai Y, Pribis JP, Dooling SW, Garcia-Villada L, Minnick PJ, Xia J, Liu J, Mei Q, Fitzgerald DM, Herman C, Hastings PJ, Costa-Mattioli M, Rosenberg SM | Science advances | 37352342 | Sci Adv | 2023 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/37352342 |
| IRE1α silences dsRNA to prevent taxane-induced pyroptosis in triple-negative breast cancer. | Xu L, Peng F, Luo Q, Ding Y, Yuan F, Zheng L, He W, Zhang SS, Fu X, Liu J, Mutlu AS, Wang S, Nehring RB, Li X, Tang Q, Li C, Lv X, Dobrolecki LE, Zhang W, Han D, Zhao N, Jaehnig E, Wang J, Wu W, Graham DA, Li Y, Chen R, Peng W, Chen Y, Catic A, Zhang Z, Zhang B, Mustoe AM, Koong AC, Miles G, Lewis MT, Wang MC, Rosenberg SM, O'Malley BW, Westbrook TF, Xu H, Zhang XH, Osborne CK, Li JB, Ellis MJ, Rimawi MF, Rosen JM, Chen X | Cell | 39419025 | Cell | 2024 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/39419025 |
| Rapid profiling of DNA replication dynamics using mass spectrometry-based analysis of nascent DNA. | Ashour ME, Byrum AK, Meroni A, Xia J, Singh S, Galletto R, Rosenberg SM, Vindigni A, Mosammaparast N | The Journal of cell biology | 36795402 | J Cell Biol | 2023 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/36795402 |
| Lung Cancer in Ever- and Never-Smokers: Findings from Multi-Population GWAS Studies. | Li Y, Xiao X, Li J, Han Y, Cheng C, Fernandes GF, Slewitzke SE, Rosenberg SM, Zhu M, Byun J, Bossé Y, McKay JD, Albanes D, Lam S, Tardon A, Chen C, Bojesen SE, Landi MT, Johansson M, Risch A, Bickeböller H, Wichmann HE, Christiani DC, Rennert G, Arnold SM, Goodman GE, Field JK, Davies MPA, Shete S, Marchand LL, Liu G, Hung RJ, Andrew AS, Kiemeney LA, Sun R, Zienolddiny S, Grankvist K, Johansson M, Caporaso NE, Cox A, Hong YC, Lazarus P, Schabath MB, Aldrich MC, Schwartz AG, Gorlov I, Purrington KS, Yang P, Liu Y, Bailey-Wilson JE, Pinney SM, Mandal D, Willey JC, Gaba C, Brennan P, Xia J, Shen H, Amos CI | Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology | 38180474 | Cancer Epidemiol Biomarkers Prev | 2024 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/38180474 |
| Biology before the SOS Response-DNA Damage Mechanisms at Chromosome Fragile Sites. | Fitzgerald DM, Rosenberg SM | Cells | 34571923 | Cells | 2021 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/34571923 |
| Cross-ancestry genome-wide meta-analysis of 61,047 cases and 947,237 controls identifies new susceptibility loci contributing to lung cancer. | Byun J, Han Y, Li Y, Xia J, Long E, Choi J, Xiao X, Zhu M, Zhou W, Sun R, Bossé Y, Song Z, Schwartz A, Lusk C, Rafnar T, Stefansson K, Zhang T, Zhao W, Pettit RW, Liu Y, Li X, Zhou H, Walsh KM, Gorlov I, Gorlova O, Zhu D, Rosenberg SM, Pinney S, Bailey-Wilson JE, Mandal D, de Andrade M, Gaba C, Willey JC, You M, Anderson M, Wiencke JK, Albanes D, Lam S, Tardon A, Chen C, Goodman G, Bojeson S, Brenner H, Landi MT, Chanock SJ, Johansson M, Muley T, Risch A, Wichmann HE, Bickeböller H, Christiani DC, Rennert G, Arnold S, Field JK, Shete S, Le Marchand L, Melander O, Brunnstrom H, Liu G, Andrew AS, Kiemeney LA, Shen H, Zienolddiny S, Grankvist K, Johansson M, Caporaso N, Cox A, Hong YC, Yuan JM, Lazarus P, Schabath MB, Aldrich MC, Patel A, Lan Q, Rothman N, Taylor F, Kachuri L, Witte JS, Sakoda LC, Spitz M, Brennan P, Lin X, McKay J, Hung RJ, Amos CI | Nature genetics | 35915169 | Nat Genet | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35915169 |
| Life, the genome and everything. | Rosenberg SM | Journal of bacteriology | 38018999 | J Bacteriol | 2023 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/38018999 |
| Targeting Infectious Agents as a Therapeutic Strategy in Alzheimer's Disease. | Fülöp T, Munawara U, Larbi A, Desroches M, Rodrigues S, Catanzaro M, Guidolin A, Khalil A, Bernier F, Barron AE, Hirokawa K, Beauregard PB, Dumoulin D, Bellenger JP, Witkowski JM, Frost E | CNS drugs | 32458360 | CNS Drugs | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32458360 |
| Supramolecular Peptoid Structure Strengthens Complexation with Polyacrylic Acid Microgels. | Zhao W, Lin JS, Nielsen JE, Sørensen K, Wadurkar AS, Ji J, Barron AE, Nangia S, Libera MR | Biomacromolecules | 38240722 | Biomacromolecules | 2024 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/38240722 |
| Antiviral effect of peptoids on hepatitis B virus infection in cell culture. | Murayama A, Igarashi H, Yamada N, Aly HH, Molchanova N, Lin JS, Nishitsuji H, Shimotohno K, Muramatsu M, Barron AE, Kato T | Antiviral research | 38272318 | Antiviral Res | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38272318 |
| Membrane-acting biomimetic peptoids against visceral leishmaniasis. | Kumar V, Lin JS, Molchanova N, Fortkort JA, Reckmann C, Bräse S, Jenssen H, Barron AE, Chugh A | FEBS open bio | 36683396 | FEBS Open Bio | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36683396 |
| Real-Time Monitoring of Multitarget Antimicrobial Mechanisms of Peptoids Using Label-Free Imaging with Optical Diffraction Tomography. | Kim M, Cheon Y, Shin D, Choi J, Nielsen JE, Jeong MS, Nam HY, Kim SH, Lund R, Jenssen H, Barron AE, Lee S, Seo J | Advanced science (Weinheim, Baden-Wurttemberg, Germany) | 37341246 | Adv Sci (Weinh) | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37341246 |
| Author Correction: Peptide-mimetic treatment of Pseudomonas aeruginosa in a mouse model of respiratory infection. | Moule MG, Benjamin AB, Burger ML, Herlan C, Lebedev M, Lin JS, Koster KJ, Wavare N, Adams LG, Bräse S, Munoz-Medina R, Cannon CL, Barron AE, Cirillo JD | Communications biology | 39271756 | Commun Biol | 2024 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/39271756 |
| The anti-inflammatory effects of photobiomodulation are mediated by cytokines: Evidence from a mouse model of inflammation. | Shamloo S, Defensor E, Ciari P, Ogawa G, Vidano L, Lin JS, Fortkort JA, Shamloo M, Barron AE | Frontiers in neuroscience | 37090796 | Front Neurosci | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37090796 |
| Efficacy of Cathelicidin-Mimetic Antimicrobial Peptoids against Staphylococcus aureus. | Benjamin AB, Moule MG, Didwania MK, Hardy J, Saenkham-Huntsinger P, Sule P, Nielsen JE, Lin JS, Contag CH, Barron AE, Cirillo JD | Microbiology spectrum | 35467395 | Microbiol Spectr | 2022 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/35467395 |
| Peptide-mimetic treatment of Pseudomonas aeruginosa in a mouse model of respiratory infection. | Moule MG, Benjamin AB, Burger ML, Herlan C, Lebedev M, Lin JS, Koster KJ, Wavare N, Adams LG, Bräse S, Munoz-Medina R, Cannon CL, Barron AE, Cirillo JD | Communications biology | 39174819 | Commun Biol | 2024 Aug 22 | https://www.ncbi.nlm.nih.gov/pubmed/39174819 |
| Pf bacteriophages hinder sputum antibiotic diffusion via electrostatic binding. | Chen Q, Cai P, Chang THW, Burgener E, Kratochvil MJ, Gupta A, Hargil A, Secor PR, Nielsen JE, Barron AE, Milla C, Heilshorn SC, Spakowitz A, Bollyky PL | bioRxiv : the preprint server for biology | 38496625 | bioRxiv | 2024 Mar 10 | https://www.ncbi.nlm.nih.gov/pubmed/38496625 |
| Targeting Impaired Antimicrobial Immunity in the Brain for the Treatment of Alzheimer's Disease. | Fulop T, Tripathi S, Rodrigues S, Desroches M, Bunt T, Eiser A, Bernier F, Beauregard PB, Barron AE, Khalil A, Plotka A, Hirokawa K, Larbi A, Bocti C, Laurent B, Frost EH, Witkowski JM | Neuropsychiatric disease and treatment | 33976546 | Neuropsychiatr Dis Treat | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/33976546 |
| Potent Antiviral Activity against HSV-1 and SARS-CoV-2 by Antimicrobial Peptoids. | Diamond G, Molchanova N, Herlan C, Fortkort JA, Lin JS, Figgins E, Bopp N, Ryan LK, Chung D, Adcock RS, Sherman M, Barron AE | Pharmaceuticals (Basel, Switzerland) | 33807248 | Pharmaceuticals (Basel) | 2021 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/33807248 |
| Self-Assembly of Antimicrobial Peptoids Impacts Their Biological Effects on ESKAPE Bacterial Pathogens. | Nielsen JE, Alford MA, Yung DBY, Molchanova N, Fortkort JA, Lin JS, Diamond G, Hancock REW, Jenssen H, Pletzer D, Lund R, Barron AE | ACS infectious diseases | 35175731 | ACS Infect Dis | 2022 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/35175731 |
| Hyperactivation of monocytes and macrophages in MCI patients contributes to the progression of Alzheimer's disease. | Munawara U, Catanzaro M, Xu W, Tan C, Hirokawa K, Bosco N, Dumoulin D, Khalil A, Larbi A, Lévesque S, Ramassamy C, Barron AE, Cunnane S, Beauregard PB, Bellenger JP, Rodrigues S, Desroches M, Witkowski JM, Laurent B, Frost EH, Fulop T | Immunity & ageing : I & A | 34154615 | Immun Ageing | 2021 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/34154615 |
| From Global to Nano: A Geographical Perspective of Aggregatibacter actinomycetemcomitans. | Ryder MI, Fine DH, Barron AE | Pathogens (Basel, Switzerland) | 39452709 | Pathogens | 2024 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/39452709 |
| Anti-persister and Anti-biofilm Activity of Self-Assembled Antimicrobial Peptoid Ellipsoidal Micelles. | Lin JS, Bekale LA, Molchanova N, Nielsen JE, Wright M, Bacacao B, Diamond G, Jenssen H, Santa Maria PL, Barron AE | ACS infectious diseases | 36018039 | ACS Infect Dis | 2022 Sep 9 | https://www.ncbi.nlm.nih.gov/pubmed/36018039 |
| Antiviral Effect of Antimicrobial Peptoid TM9 and Murine Model of Respiratory Coronavirus Infection. | Lebedev M, Benjamin AB, Kumar S, Molchanova N, Lin JS, Koster KJ, Leibowitz JL, Barron AE, Cirillo JD | Pharmaceutics | 38675125 | Pharmaceutics | 2024 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/38675125 |
| The activity of antimicrobial peptoids against multidrug-resistant ocular pathogens. | Sara M, Yasir M, Kalaiselvan P, Hui A, Kuppusamy R, Kumar N, Chakraborty S, Yu TT, Wong EHH, Molchanova N, Jenssen H, Lin JS, Barron AE, Willcox M | Contact lens & anterior eye : the journal of the British Contact Lens Association | 38341309 | Cont Lens Anterior Eye | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/38341309 |
| Ethylene oxide graft copolymers reduce the immunogenicity of lipid nanoparticles. | Qi Y, Han H, Liu A, Zhao S, Lawanprasert A, Nielsen JE, Choudhary H, Liang D, Barron AE, Murthy N | RSC advances | 39309654 | RSC Adv | 2024 Sep 18 | https://www.ncbi.nlm.nih.gov/pubmed/39309654 |
| Acid-degradable lipid nanoparticles enhance the delivery of mRNA. | Zhao S, Gao K, Han H, Stenzel M, Yin B, Song H, Lawanprasert A, Nielsen JE, Sharma R, Arogundade OH, Pimcharoen S, Chen YJ, Paul A, Tuma J, Collins MG, Wyle Y, Cranick MG, Burgstone BW, Perez BS, Barron AE, Smith AM, Lee HY, Wang A, Murthy N | Nature nanotechnology | 39179796 | Nat Nanotechnol | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39179796 |
| Functional cell death, corneoptosis, requires temporally controlled intracellular acidification. | Moore JL, Greco V | Proceedings of the National Academy of Sciences of the United States of America | 33986147 | Proc Natl Acad Sci U S A | 2021 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/33986147 |
| Gradual differentiation uncoupled from cell cycle exit generates heterogeneity in the epidermal stem cell layer. | Cockburn K, Annusver K, Gonzalez DG, Ganesan S, May DP, Mesa KR, Kawaguchi K, Kasper M, Greco V | Nature cell biology | 36357619 | Nat Cell Biol | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36357619 |
| Mechanisms of skin vascular maturation and maintenance captured by longitudinal imaging of live mice. | Kam CY, Singh ID, Gonzalez DG, Matte-Martone C, Solá P, Solanas G, Bonjoch J, Marsh E, Hirschi KK, Greco V | Cell | 37167971 | Cell | 2023 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/37167971 |
| Oncogenic Kras induces spatiotemporally specific tissue deformation through converting pulsatile into sustained ERK activation. | Xin T, Gallini S, Wei H, Gonzalez DG, Matte-Martone C, Machida H, Fujiwara H, Pasolli HA, Suozzi KC, Gonzalez LE, Regot S, Greco V | Nature cell biology | 38689013 | Nat Cell Biol | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38689013 |
| Metabolic rewiring in skin epidermis drives tolerance to oncogenic mutations. | Hemalatha A, Li Z, Gonzalez DG, Matte-Martone C, Tai K, Lathrop E, Gil D, Ganesan S, Gonzalez LE, Skala M, Perry RJ, Greco V | Nature cell biology | 39762578 | Nat Cell Biol | 2025 Feb | https://www.ncbi.nlm.nih.gov/pubmed/39762578 |
| From start to finish-a molecular link in wound repair. | Yun S, Greco V | Science (New York, N.Y.) | 35143296 | Science | 2022 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/35143296 |
| Live imaging reveals chromatin compaction transitions and dynamic transcriptional bursting during stem cell differentiation in vivo. | May D, Yun S, Gonzalez DG, Park S, Chen Y, Lathrop E, Cai B, Xin T, Zhao H, Wang S, Gonzalez LE, Cockburn K, Greco V | eLife | 36880644 | Elife | 2023 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/36880644 |
| Cell cycle controls long-range calcium signaling in the regenerating epidermis. | Moore JL, Bhaskar D, Gao F, Matte-Martone C, Du S, Lathrop E, Ganesan S, Shao L, Norris R, Campamà Sanz N, Annusver K, Kasper M, Cox A, Hendry C, Rieck B, Krishnaswamy S, Greco V | The Journal of cell biology | 37102999 | J Cell Biol | 2023 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/37102999 |
| A Spatiotemporal Compartmentalization of Glucose Metabolism Guides Mammalian Gastrulation Progression. | Cao D, Zhong L, Hemalatha A, Bergmann J, Cox AL, Greco V, Sozen B | bioRxiv : the preprint server for biology | 37333168 | bioRxiv | 2023 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/37333168 |
| Injury prevents Ras mutant cell expansion in mosaic skin. | Gallini S, Annusver K, Rahman NT, Gonzalez DG, Yun S, Matte-Martone C, Xin T, Lathrop E, Suozzi KC, Kasper M, Greco V | Nature | 37344586 | Nature | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37344586 |
| Skin-resident immune cells actively coordinate their distribution with epidermal cells during homeostasis. | Park S, Matte-Martone C, Gonzalez DG, Lathrop EA, May DP, Pineda CM, Moore JL, Boucher JD, Marsh E, Schmitter-Sánchez A, Cockburn K, Markova O, Bellaïche Y, Greco V | Nature cell biology | 33958758 | Nat Cell Biol | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/33958758 |
| Probing the rules of cell coordination in live tissues by interpretable machine learning based on graph neural networks. | Yamamoto T, Cockburn K, Greco V, Kawaguchi K | PLoS computational biology | 36067226 | PLoS Comput Biol | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36067226 |
| Selective utilization of glucose metabolism guides mammalian gastrulation. | Cao D, Bergmann J, Zhong L, Hemalatha A, Dingare C, Jensen T, Cox AL, Greco V, Steventon B, Sozen B | Nature | 39415005 | Nature | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39415005 |
| Correction: Cell cycle controls long-range calcium signaling in the regenerating epidermis. | Moore JL, Bhaskar D, Gao F, Matte-Martone C, Du S, Lathrop E, Ganesan S, Shao L, Norris R, Sanz NC, Annusver K, Kasper M, Cox A, Hendry C, Rieck B, Krishnaswamy S, Greco V | The Journal of cell biology | 38477880 | J Cell Biol | 2024 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/38477880 |
| Organ function is preserved despite reorganization of niche architecture in the hair follicle. | Wei H, Du S, Parksong J, Pasolli HA, Matte-Martone C, Regot S, Gonzalez LE, Xin T, Greco V | Cell stem cell | 37419106 | Cell Stem Cell | 2023 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/37419106 |
| Dissecting dual roles of MyoD during lineage conversion to mature myocytes and myogenic stem cells. | Yagi M, Ji F, Charlton J, Cristea S, Messemer K, Horwitz N, Di Stefano B, Tsopoulidis N, Hoetker MS, Huebner AJ, Bar-Nur O, Almada AE, Yamamoto M, Patelunas A, Goldhamer DJ, Wagers AJ, Michor F, Meissner A, Sadreyev RI, Hochedlinger K | Genes & development | 34413137 | Genes Dev | 2021 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/34413137 |
| High-efficiency purification of divergent AAV serotypes using AAVX affinity chromatography. | Florea M, Nicolaou F, Pacouret S, Zinn EM, Sanmiguel J, Andres-Mateos E, Unzu C, Wagers AJ, Vandenberghe LH | Molecular therapy. Methods & clinical development | 36654797 | Mol Ther Methods Clin Dev | 2023 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/36654797 |
| Directed evolution of a family of AAV capsid variants enabling potent muscle-directed gene delivery across species. | Tabebordbar M, Lagerborg KA, Stanton A, King EM, Ye S, Tellez L, Krunnfusz A, Tavakoli S, Widrick JJ, Messemer KA, Troiano EC, Moghadaszadeh B, Peacker BL, Leacock KA, Horwitz N, Beggs AH, Wagers AJ, Sabeti PC | Cell | 34506722 | Cell | 2021 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/34506722 |
| In Situ Modification of Tissue Stem and Progenitor Cell Genomes. | Goldstein JM, Tabebordbar M, Zhu K, Wang LD, Messemer KA, Peacker B, Ashrafi Kakhki S, Gonzalez-Celeiro M, Shwartz Y, Cheng JKW, Xiao R, Barungi T, Albright C, Hsu YC, Vandenberghe LH, Wagers AJ | Cell reports | 31018138 | Cell Rep | 2019 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/31018138 |
| Therapeutic Potential of NAD-Boosting Molecules: The In Vivo Evidence. | Rajman L, Chwalek K, Sinclair DA | Cell metabolism | 29514064 | Cell Metab | 2018 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/29514064 |
| Nicotinamide Improves Aspects of Healthspan, but Not Lifespan, in Mice. | Mitchell SJ, Bernier M, Aon MA, Cortassa S, Kim EY, Fang EF, Palacios HH, Ali A, Navas-Enamorado I, Di Francesco A, Kaiser TA, Waltz TB, Zhang N, Ellis JL, Elliott PJ, Frederick DW, Bohr VA, Schmidt MS, Brenner C, Sinclair DA, Sauve AA, Baur JA, de Cabo R | Cell metabolism | 29514072 | Cell Metab | 2018 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/29514072 |
| Comparing the Effects of Low-Protein and High-Carbohydrate Diets and Caloric Restriction on Brain Aging in Mice. | Wahl D, Solon-Biet SM, Wang QP, Wali JA, Pulpitel T, Clark X, Raubenheimer D, Senior AM, Sinclair DA, Cooney GJ, de Cabo R, Cogger VC, Simpson SJ, Le Couteur DG | Cell reports | 30463018 | Cell Rep | 2018 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/30463018 |
| Nicotinamide mononucleotide (NMN) supplementation ameliorates the impact of maternal obesity in mice: comparison with exercise. | Uddin GM, Youngson NA, Doyle BM, Sinclair DA, Morris MJ | Scientific reports | 29118320 | Sci Rep | 2017 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/29118320 |
| Barrier-to-autointegration factor 1 (Banf1) regulates poly [ADP-ribose] polymerase 1 (PARP1) activity following oxidative DNA damage. | Bolderson E, Burgess JT, Li J, Gandhi NS, Boucher D, Croft LV, Beard S, Plowman JJ, Suraweera A, Adams MN, Naqi A, Zhang SD, Sinclair DA, O'Byrne KJ, Richard DJ | Nature communications | 31796734 | Nat Commun | 2019 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/31796734 |
| Molecular and Cellular Characterization of SIRT1 Allosteric Activators. | Schultz MB, Rinaldi C, Lu Y, Amorim JA, Sinclair DA | Methods in molecular biology (Clifton, N.J.) | 31087296 | Methods Mol Biol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31087296 |
| Voluntary exercise normalizes the proteomic landscape in muscle and brain and improves the phenotype of progeroid mice. | Ross JM, Coppotelli G, Branca RM, Kim KM, Lehtiö J, Sinclair DA, Olson L | Aging cell | 31489782 | Aging Cell | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31489782 |
| Frailty biomarkers in humans and rodents: Current approaches and future advances. | Kane AE, Sinclair DA | Mechanisms of ageing and development | 31002925 | Mech Ageing Dev | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31002925 |
| Sirtuins and NAD(+) in the Development and Treatment of Metabolic and Cardiovascular Diseases. | Kane AE, Sinclair DA | Circulation research | 30355082 | Circ Res | 2018 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/30355082 |
| Quantitative proteomic analysis of extracellular vesicle subgroups isolated by an optimized method combining polymer-based precipitation and size exclusion chromatography. | Martínez-Greene JA, Hernández-Ortega K, Quiroz-Baez R, Resendis-Antonio O, Pichardo-Casas I, Sinclair DA, Budnik B, Hidalgo-Miranda A, Uribe-Querol E, Ramos-Godínez MDP, Martínez-Martínez E | Journal of extracellular vesicles | 33936570 | J Extracell Vesicles | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33936570 |
| Skeletal muscle overexpression of nicotinamide phosphoribosyl transferase in mice coupled with voluntary exercise augments exercise endurance. | Costford SR, Brouwers B, Hopf ME, Sparks LM, Dispagna M, Gomes AP, Cornnell HH, Petucci C, Phelan P, Xie H, Yi F, Walter GA, Osborne TF, Sinclair DA, Mynatt RL, Ayala JE, Gardell SJ, Smith SR | Molecular metabolism | 29146412 | Mol Metab | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29146412 |
| Longitudinal analysis of biomarker data from a personalized nutrition platform in healthy subjects. | Westerman K, Reaver A, Roy C, Ploch M, Sharoni E, Nogal B, Sinclair DA, Katz DL, Blumberg JB, Blander G | Scientific reports | 30279436 | Sci Rep | 2018 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/30279436 |
| Assays for NAD(+)-Dependent Reactions and NAD(+) Metabolites. | Schultz MB, Lu Y, Braidy N, Sinclair DA | Methods in molecular biology (Clifton, N.J.) | 30097862 | Methods Mol Biol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30097862 |
| Resveratrol Improves Vascular Function and Mitochondrial Number but Not Glucose Metabolism in Older Adults. | Pollack RM, Barzilai N, Anghel V, Kulkarni AS, Golden A, O'Broin P, Sinclair DA, Bonkowski MS, Coleville AJ, Powell D, Kim S, Moaddel R, Stein D, Zhang K, Hawkins M, Crandall JP | The journals of gerontology. Series A, Biological sciences and medical sciences | 28329397 | J Gerontol A Biol Sci Med Sci | 2017 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/28329397 |
| NAD(+) in Brain Aging and Neurodegenerative Disorders. | Lautrup S, Sinclair DA, Mattson MP, Fang EF | Cell metabolism | 31577933 | Cell Metab | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/31577933 |
| Amino Acid Restriction Triggers Angiogenesis via GCN2/ATF4 Regulation of VEGF and H(2)S Production. | Longchamp A, Mirabella T, Arduini A, MacArthur MR, Das A, Treviño-Villarreal JH, Hine C, Ben-Sahra I, Knudsen NH, Brace LE, Reynolds J, Mejia P, Tao M, Sharma G, Wang R, Corpataux JM, Haefliger JA, Ahn KH, Lee CH, Manning BD, Sinclair DA, Chen CS, Ozaki CK, Mitchell JR | Cell | 29570992 | Cell | 2018 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/29570992 |
| Impairment of an Endothelial NAD(+)-H(2)S Signaling Network Is a Reversible Cause of Vascular Aging. | Das A, Huang GX, Bonkowski MS, Longchamp A, Li C, Schultz MB, Kim LJ, Osborne B, Joshi S, Lu Y, Treviño-Villarreal JH, Kang MJ, Hung TT, Lee B, Williams EO, Igarashi M, Mitchell JR, Wu LE, Turner N, Arany Z, Guarente L, Sinclair DA | Cell | 29570999 | Cell | 2018 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/29570999 |
| Sirtuin activators and inhibitors: Promises, achievements, and challenges. | Dai H, Sinclair DA, Ellis JL, Steegborn C | Pharmacology & therapeutics | 29577959 | Pharmacol Ther | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29577959 |
| Dynamic Acetylation of Phosphoenolpyruvate Carboxykinase Toggles Enzyme Activity between Gluconeogenic and Anaplerotic Reactions. | Latorre-Muro P, Baeza J, Armstrong EA, Hurtado-Guerrero R, Corzana F, Wu LE, Sinclair DA, López-Buesa P, Carrodeguas JA, Denu JM | Molecular cell | 30193097 | Mol Cell | 2018 Sep 6 | https://www.ncbi.nlm.nih.gov/pubmed/30193097 |
| Multigenerational obesity-induced perturbations in oocyte-secreted factor signalling can be ameliorated by exercise and nicotinamide mononucleotide. | Bertoldo MJ, Uddin GM, Youngson NA, Agapiou D, Walters KA, Sinclair DA, Morris MJ, Gilchrist RB | Human reproduction open | 30895251 | Hum Reprod Open | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30895251 |
| Multiple basal cell carcinomas in a patient with myotonic dystrophy type 1. | Feng J, LaChance A, Sinclair DA, Asgari MM | BMJ case reports | 30852496 | BMJ Case Rep | 2019 Mar 8 | https://www.ncbi.nlm.nih.gov/pubmed/30852496 |
| Telomere Dysfunction Induces Sirtuin Repression that Drives Telomere-Dependent Disease. | Amano H, Chaudhury A, Rodriguez-Aguayo C, Lu L, Akhanov V, Catic A, Popov YV, Verdin E, Johnson H, Stossi F, Sinclair DA, Nakamaru-Ogiso E, Lopez-Berestein G, Chang JT, Neilson JR, Meeker A, Finegold M, Baur JA, Sahin E | Cell metabolism | 30930169 | Cell Metab | 2019 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/30930169 |
| Targeting mitochondria for cardiovascular disorders: therapeutic potential and obstacles. | Bonora M, Wieckowski MR, Sinclair DA, Kroemer G, Pinton P, Galluzzi L | Nature reviews. Cardiology | 30177752 | Nat Rev Cardiol | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30177752 |
| Nicotinamide mononucleotide (NMN) supplementation rescues cerebromicrovascular endothelial function and neurovascular coupling responses and improves cognitive function in aged mice. | Tarantini S, Valcarcel-Ares MN, Toth P, Yabluchanskiy A, Tucsek Z, Kiss T, Hertelendy P, Kinter M, Ballabh P, Süle Z, Farkas E, Baur JA, Sinclair DA, Csiszar A, Ungvari Z | Redox biology | 31015147 | Redox Biol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31015147 |
| Publisher Correction: Longitudinal analysis of biomarker data from a personalized nutrition platform in healthy subjects. | Westerman K, Reaver A, Roy C, Ploch M, Sharoni E, Nogal B, Sinclair DA, Katz DL, Blumberg JB, Blander G | Scientific reports | 30405144 | Sci Rep | 2018 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/30405144 |
| Harvard HIV and Aging Workshop: Perspectives and Priorities from Claude D. Pepper Centers and Centers for AIDS Research. | Montano M, Bhasin S, D'Aquila RT, Erlandson KM, Evans WJ, Funderburg NT, Justice A, Ndhlovu LC, Ojikutu B, Pahor M, Pahwa S, Ryan AS, Schrack J, Schultz MB, Sebastiani P, Sinclair DA, Tripp J, Walker B, Womack JA, Yung R, Reeves RK | AIDS research and human retroviruses | 31456412 | AIDS Res Hum Retroviruses | 2019 Nov-Dec | https://www.ncbi.nlm.nih.gov/pubmed/31456412 |
| Mitohormesis and metabolic health: The interplay between ROS, cAMP and sirtuins. | Palmeira CM, Teodoro JS, Amorim JA, Steegborn C, Sinclair DA, Rolo AP | Free radical biology & medicine | 31349039 | Free Radic Biol Med | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31349039 |
| Epigenetic changes during aging and their reprogramming potential. | Kane AE, Sinclair DA | Critical reviews in biochemistry and molecular biology | 30822165 | Crit Rev Biochem Mol Biol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30822165 |
| Impacts of obesity, maternal obesity and nicotinamide mononucleotide supplementation on sperm quality in mice. | Youngson NA, Uddin GM, Das A, Martinez C, Connaughton HS, Whiting S, Yu J, Sinclair DA, Aitken RJ, Morris MJ | Reproduction (Cambridge, England) | 31226694 | Reproduction | 2019 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/31226694 |
| NAD(+) Repletion Rescues Female Fertility during Reproductive Aging. | Bertoldo MJ, Listijono DR, Ho WJ, Riepsamen AH, Goss DM, Richani D, Jin XL, Mahbub S, Campbell JM, Habibalahi A, Loh WN, Youngson NA, Maniam J, Wong ASA, Selesniemi K, Bustamante S, Li C, Zhao Y, Marinova MB, Kim LJ, Lau L, Wu RM, Mikolaizak AS, Araki T, Le Couteur DG, Turner N, Morris MJ, Walters KA, Goldys E, O'Neill C, Gilchrist RB, Sinclair DA, Homer HA, Wu LE | Cell reports | 32049001 | Cell Rep | 2020 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/32049001 |
| Rates of contributory de novo mutation in high and low-risk autism families. | Yoon S, Munoz A, Yamrom B, Lee YH, Andrews P, Marks S, Wang Z, Reeves C, Winterkorn L, Krieger AM, Buja A, Pradhan K, Ronemus M, Baldwin KK, Levy D, Wigler M, Iossifov I | Communications biology | 34471188 | Commun Biol | 2021 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/34471188 |
| Genomic integrity of human induced pluripotent stem cells across nine studies in the NHLBI NextGen program. | Kanchan K, Iyer K, Yanek LR, Carcamo-Orive I, Taub MA, Malley C, Baldwin K, Becker LC, Broeckel U, Cheng L, Cowan C, D'Antonio M, Frazer KA, Quertermous T, Mostoslavsky G, Murphy G, Rabinovitch M, Rader DJ, Steinberg MH, Topol E, Yang W, Knowles JW, Jaquish CE, Ruczinski I, Mathias RA | Stem cell research | 32442913 | Stem Cell Res | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32442913 |
| Influence of donor age on induced pluripotent stem cells. | Lo Sardo V, Ferguson W, Erikson GA, Topol EJ, Baldwin KK, Torkamani A | Nature biotechnology | 27941802 | Nat Biotechnol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27941802 |
| Diverse reprogramming codes for neuronal identity. | Tsunemoto R, Lee S, Szűcs A, Chubukov P, Sokolova I, Blanchard JW, Eade KT, Bruggemann J, Wu C, Torkamani A, Sanna PP, Baldwin KK | Nature | 29743677 | Nature | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29743677 |
| Transcriptional profiling of isogenic Friedreich ataxia neurons and effect of an HDAC inhibitor on disease signatures. | Lai JI, Nachun D, Petrosyan L, Throesch B, Campau E, Gao F, Baldwin KK, Coppola G, Gottesfeld JM, Soragni E | The Journal of biological chemistry | 30552117 | J Biol Chem | 2019 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/30552117 |
| Unveiling the Role of the Most Impactful Cardiovascular Risk Locus through Haplotype Editing. | Lo Sardo V, Chubukov P, Ferguson W, Kumar A, Teng EL, Duran M, Zhang L, Cost G, Engler AJ, Urnov F, Topol EJ, Torkamani A, Baldwin KK | Cell | 30528432 | Cell | 2018 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/30528432 |
| Physiological blood-brain transport is impaired with age by a shift in transcytosis. | Yang AC, Stevens MY, Chen MB, Lee DP, Stähli D, Gate D, Contrepois K, Chen W, Iram T, Zhang L, Vest RT, Chaney A, Lehallier B, Olsson N, du Bois H, Hsieh R, Cropper HC, Berdnik D, Li L, Wang EY, Traber GM, Bertozzi CR, Luo J, Snyder MP, Elias JE, Quake SR, James ML, Wyss-Coray T | Nature | 32612231 | Nature | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32612231 |
| A single-cell transcriptomic atlas characterizes ageing tissues in the mouse. | Tabula Muris Consortium | Nature | 32669714 | Nature | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32669714 |
| Brain Endothelial Cells Are Exquisite Sensors of Age-Related Circulatory Cues. | Chen MB, Yang AC, Yousef H, Lee D, Chen W, Schaum N, Lehallier B, Quake SR, Wyss-Coray T | Cell reports | 32234477 | Cell Rep | 2020 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/32234477 |
| Aged blood impairs hippocampal neural precursor activity and activates microglia via brain endothelial cell VCAM1. | Yousef H, Czupalla CJ, Lee D, Chen MB, Burke AN, Zera KA, Zandstra J, Berber E, Lehallier B, Mathur V, Nair RV, Bonanno LN, Yang AC, Peterson T, Hadeiba H, Merkel T, Körbelin J, Schwaninger M, Buckwalter MS, Quake SR, Butcher EC, Wyss-Coray T | Nature medicine | 31086348 | Nat Med | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31086348 |
| A neuronal blood marker is associated with mortality in old age. | Kaeser SA, Lehallier B, Thinggaard M, Häsler LM, Apel A, Bergmann C, Berdnik D, Jeune B, Christensen K, Grönke S, Partridge L, Wyss-Coray T, Mengel-From J, Jucker M | Nature aging | 37118632 | Nat Aging | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/37118632 |
| CD22 blockade restores homeostatic microglial phagocytosis in ageing brains. | Pluvinage JV, Haney MS, Smith BAH, Sun J, Iram T, Bonanno L, Li L, Lee DP, Morgens DW, Yang AC, Shuken SR, Gate D, Scott M, Khatri P, Luo J, Bertozzi CR, Bassik MC, Wyss-Coray T | Nature | 30944478 | Nature | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30944478 |
| Molecular hallmarks of heterochronic parabiosis at single-cell resolution. | Pálovics R, Keller A, Schaum N, Tan W, Fehlmann T, Borja M, Kern F, Bonanno L, Calcuttawala K, Webber J, McGeever A, Tabula Muris Consortium, Luo J, Pisco AO, Karkanias J, Neff NF, Darmanis S, Quake SR, Wyss-Coray T | Nature | 35236985 | Nature | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35236985 |
| Human umbilical cord plasma proteins revitalize hippocampal function in aged mice. | Castellano JM, Mosher KI, Abbey RJ, McBride AA, James ML, Berdnik D, Shen JC, Zou B, Xie XS, Tingle M, Hinkson IV, Angst MS, Wyss-Coray T | Nature | 28424512 | Nature | 2017 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/28424512 |
| Lipid-droplet-accumulating microglia represent a dysfunctional and proinflammatory state in the aging brain. | Marschallinger J, Iram T, Zardeneta M, Lee SE, Lehallier B, Haney MS, Pluvinage JV, Mathur V, Hahn O, Morgens DW, Kim J, Tevini J, Felder TK, Wolinski H, Bertozzi CR, Bassik MC, Aigner L, Wyss-Coray T | Nature neuroscience | 31959936 | Nat Neurosci | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31959936 |
| Eosinophils regulate adipose tissue inflammation and sustain physical and immunological fitness in old age. | Brigger D, Riether C, van Brummelen R, Mosher KI, Shiu A, Ding Z, Zbären N, Gasser P, Guntern P, Yousef H, Castellano JM, Storni F, Graff-Radford N, Britschgi M, Grandgirard D, Hinterbrandner M, Siegrist M, Moullan N, Hofstetter W, Leib SL, Villiger PM, Auwerx J, Villeda SA, Wyss-Coray T, Noti M, Eggel A | Nature metabolism | 32694825 | Nat Metab | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32694825 |
| Multiple Click-Selective tRNA Synthetases Expand Mammalian Cell-Specific Proteomics. | Yang AC, du Bois H, Olsson N, Gate D, Lehallier B, Berdnik D, Brewer KD, Bertozzi CR, Elias JE, Wyss-Coray T | Journal of the American Chemical Society | 29775058 | J Am Chem Soc | 2018 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/29775058 |
| Papain-based Single Cell Isolation of Primary Murine Brain Endothelial Cells Using Flow Cytometry. | Yousef H, Czupalla CJ, Lee D, Butcher EC, Wyss-Coray T | Bio-protocol | 31032379 | Bio Protoc | 2018 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/31032379 |
| Undulating changes in human plasma proteome profiles across the lifespan. | Lehallier B, Gate D, Schaum N, Nanasi T, Lee SE, Yousef H, Moran Losada P, Berdnik D, Keller A, Verghese J, Sathyan S, Franceschi C, Milman S, Barzilai N, Wyss-Coray T | Nature medicine | 31806903 | Nat Med | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31806903 |
| Convergent evolution of marine mammals is associated with distinct substitutions in common genes. | Zhou X, Seim I, Gladyshev VN | Scientific reports | 26549748 | Sci Rep | 2015 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/26549748 |
| Gene expression defines natural changes in mammalian lifespan. | Fushan AA, Turanov AA, Lee SG, Kim EB, Lobanov AV, Yim SH, Buffenstein R, Lee SR, Chang KT, Rhee H, Kim JS, Yang KS, Gladyshev VN | Aging cell | 25677554 | Aging Cell | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25677554 |
| A whole lifespan mouse multi-tissue DNA methylation clock. | Meer MV, Podolskiy DI, Tyshkovskiy A, Gladyshev VN | eLife | 30427307 | Elife | 2018 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/30427307 |
| Integrating cellular senescence with the concept of damage accumulation in aging: Relevance for clearance of senescent cells. | Ogrodnik M, Salmonowicz H, Gladyshev VN | Aging cell | 30346102 | Aging Cell | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30346102 |
| Using DNA Methylation Profiling to Evaluate Biological Age and Longevity Interventions. | Petkovich DA, Podolskiy DI, Lobanov AV, Lee SG, Miller RA, Gladyshev VN | Cell metabolism | 28380383 | Cell Metab | 2017 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/28380383 |
| Age-associated molecular changes are deleterious and may modulate life span through diet. | Lee SG, Kaya A, Avanesov AS, Podolskiy DI, Song EJ, Go DM, Jin GD, Hwang JY, Kim EB, Kim DY, Gladyshev VN | Science advances | 28232953 | Sci Adv | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28232953 |
| Systematic age-, organ-, and diet-associated ionome remodeling and the development of ionomic aging clocks. | Zhang B, Podolskiy DI, Mariotti M, Seravalli J, Gladyshev VN | Aging cell | 32323920 | Aging Cell | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32323920 |
| Glutathione peroxidase 4 and vitamin E cooperatively prevent hepatocellular degeneration. | Carlson BA, Tobe R, Yefremova E, Tsuji PA, Hoffmann VJ, Schweizer U, Gladyshev VN, Hatfield DL, Conrad M | Redox biology | 27262435 | Redox Biol | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27262435 |
| Cell culture-based profiling across mammals reveals DNA repair and metabolism as determinants of species longevity. | Ma S, Upneja A, Galecki A, Tsai YM, Burant CF, Raskind S, Zhang Q, Zhang ZD, Seluanov A, Gorbunova V, Clish CB, Miller RA, Gladyshev VN | eLife | 27874830 | Elife | 2016 Nov 22 | https://www.ncbi.nlm.nih.gov/pubmed/27874830 |
| LINE1 Derepression in Aged Wild-Type and SIRT6-Deficient Mice Drives Inflammation. | Simon M, Van Meter M, Ablaeva J, Ke Z, Gonzalez RS, Taguchi T, De Cecco M, Leonova KI, Kogan V, Helfand SL, Neretti N, Roichman A, Cohen HY, Meer MV, Gladyshev VN, Antoch MP, Gudkov AV, Sedivy JM, Seluanov A, Gorbunova V | Cell metabolism | 30853213 | Cell Metab | 2019 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/30853213 |
| Organization of the Mammalian Metabolome according to Organ Function, Lineage Specialization, and Longevity. | Ma S, Yim SH, Lee SG, Kim EB, Lee SR, Chang KT, Buffenstein R, Lewis KN, Park TJ, Miller RA, Clish CB, Gladyshev VN | Cell metabolism | 26244935 | Cell Metab | 2015 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/26244935 |
| The transcriptome of the bowhead whale Balaena mysticetus reveals adaptations of the longest-lived mammal. | Seim I, Ma S, Zhou X, Gerashchenko MV, Lee SG, Suydam R, George JC, Bickham JW, Gladyshev VN | Aging | 25411232 | Aging (Albany NY) | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25411232 |
| Adaptations to a subterranean environment and longevity revealed by the analysis of mole rat genomes. | Fang X, Seim I, Huang Z, Gerashchenko MV, Xiong Z, Turanov AA, Zhu Y, Lobanov AV, Fan D, Yim SH, Yao X, Ma S, Yang L, Lee SG, Kim EB, Bronson RT, Šumbera R, Buffenstein R, Zhou X, Krogh A, Park TJ, Zhang G, Wang J, Gladyshev VN | Cell reports | 25176646 | Cell Rep | 2014 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/25176646 |
| Comparative analysis of genome maintenance genes in naked mole rat, mouse, and human. | MacRae SL, Zhang Q, Lemetre C, Seim I, Calder RB, Hoeijmakers J, Suh Y, Gladyshev VN, Seluanov A, Gorbunova V, Vijg J, Zhang ZD | Aging cell | 25645816 | Aging Cell | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25645816 |
| Mechanisms of cancer resistance in long-lived mammals. | Seluanov A, Gladyshev VN, Vijg J, Gorbunova V | Nature reviews. Cancer | 29622806 | Nat Rev Cancer | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29622806 |
| Naked Mole Rat Induced Pluripotent Stem Cells and Their Contribution to Interspecific Chimera. | Lee SG, Mikhalchenko AE, Yim SH, Lobanov AV, Park JK, Choi KH, Bronson RT, Lee CK, Park TJ, Gladyshev VN | Stem cell reports | 29107591 | Stem Cell Reports | 2017 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/29107591 |
| Selenocysteine tRNA([Ser]Sec), the Central Component of Selenoprotein Biosynthesis: Isolation, Identification, Modification, and Sequencing. | Carlson BA, Lee BJ, Tsuji PA, Copeland PR, Schweizer U, Gladyshev VN, Hatfield DL | Methods in molecular biology (Clifton, N.J.) | 28917036 | Methods Mol Biol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/28917036 |
| Naked mole rats can undergo developmental, oncogene-induced and DNA damage-induced cellular senescence. | Zhao Y, Tyshkovskiy A, Muñoz-Espín D, Tian X, Serrano M, de Magalhaes JP, Nevo E, Gladyshev VN, Seluanov A, Gorbunova V | Proceedings of the National Academy of Sciences of the United States of America | 29432174 | Proc Natl Acad Sci U S A | 2018 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/29432174 |
| Identification and Application of Gene Expression Signatures Associated with Lifespan Extension. | Tyshkovskiy A, Bozaykut P, Borodinova AA, Gerashchenko MV, Ables GP, Garratt M, Khaitovich P, Clish CB, Miller RA, Gladyshev VN | Cell metabolism | 31353263 | Cell Metab | 2019 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/31353263 |
| Germline burden of rare damaging variants negatively affects human healthspan and lifespan. | Shindyapina AV, Zenin AA, Tarkhov AE, Santesmasses D, Fedichev PO, Gladyshev VN | eLife | 32254024 | Elife | 2020 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/32254024 |
| Non-enzymatic molecular damage as a prototypic driver of aging. | Golubev A, Hanson AD, Gladyshev VN | The Journal of biological chemistry | 28264930 | J Biol Chem | 2017 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/28264930 |
| Deficiency of the 15-kDa selenoprotein led to cytoskeleton remodeling and non-apoptotic membrane blebbing through a RhoA/ROCK pathway. | Bang J, Jang M, Huh JH, Na JW, Shim M, Carlson BA, Tobe R, Tsuji PA, Gladyshev VN, Hatfield DL, Lee BJ | Biochemical and biophysical research communications | 25529450 | Biochem Biophys Res Commun | 2015 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/25529450 |
| Comparative genetics of longevity and cancer: insights from long-lived rodents. | Gorbunova V, Seluanov A, Zhang Z, Gladyshev VN, Vijg J | Nature reviews. Genetics | 24981598 | Nat Rev Genet | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24981598 |
| Multifaceted deregulation of gene expression and protein synthesis with age. | Anisimova AS, Meerson MB, Gerashchenko MV, Kulakovskiy IV, Dmitriev SE, Gladyshev VN | Proceedings of the National Academy of Sciences of the United States of America | 32576685 | Proc Natl Acad Sci U S A | 2020 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/32576685 |
| Comparative transcriptomics across 14 Drosophila species reveals signatures of longevity. | Ma S, Avanesov AS, Porter E, Lee BC, Mariotti M, Zemskaya N, Guigo R, Moskalev AA, Gladyshev VN | Aging cell | 29671950 | Aging Cell | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29671950 |
| Molecular signatures of longevity: Insights from cross-species comparative studies. | Ma S, Gladyshev VN | Seminars in cell & developmental biology | 28800931 | Semin Cell Dev Biol | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28800931 |
| SIRT6 Is Responsible for More Efficient DNA Double-Strand Break Repair in Long-Lived Species. | Tian X, Firsanov D, Zhang Z, Cheng Y, Luo L, Tombline G, Tan R, Simon M, Henderson S, Steffan J, Goldfarb A, Tam J, Zheng K, Cornwell A, Johnson A, Yang JN, Mao Z, Manta B, Dang W, Zhang Z, Vijg J, Wolfe A, Moody K, Kennedy BK, Bohmann D, Gladyshev VN, Seluanov A, Gorbunova V | Cell | 31002797 | Cell | 2019 Apr 18 | https://www.ncbi.nlm.nih.gov/pubmed/31002797 |
| A Disease or Not a Disease? Aging As a Pathology. | Gladyshev TV, Gladyshev VN | Trends in molecular medicine | 27793599 | Trends Mol Med | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/27793599 |
| Extrarenal expression of α-klotho, the kidney related longevity gene, in Heterocephalus glaber, the long living Naked Mole Rat. | Morevati M, Mace ML, Egstrand S, Nordholm A, Doganli C, Strand J, Rukov JL, Torsetnes SB, Gorbunova V, Olgaard K, Lewin E | Scientific reports | 34321565 | Sci Rep | 2021 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/34321565 |
| Biological age is increased by stress and restored upon recovery. | Poganik JR, Zhang B, Baht GS, Tyshkovskiy A, Deik A, Kerepesi C, Yim SH, Lu AT, Haghani A, Gong T, Hedman AM, Andolf E, Pershagen G, Almqvist C, Clish CB, Horvath S, White JP, Gladyshev VN | Cell metabolism | 37086720 | Cell Metab | 2023 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/37086720 |
| Analysis of cancer genomes reveals basic features of human aging and its role in cancer development. | Podolskiy DI, Lobanov AV, Kryukov GV, Gladyshev VN | Nature communications | 27515585 | Nat Commun | 2016 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/27515585 |
| Defining Molecular Basis for Longevity Traits in Natural Yeast Isolates. | Kaya A, Ma S, Wasko B, Lee M, Kaeberlein M, Gladyshev VN | NPJ aging and mechanisms of disease | 27030810 | NPJ Aging Mech Dis | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/27030810 |
| Gene expression signatures of human cell and tissue longevity. | Seim I, Ma S, Gladyshev VN | NPJ aging and mechanisms of disease | 28721269 | NPJ Aging Mech Dis | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/28721269 |
| Global remodeling of the mouse DNA methylome during aging and in response to calorie restriction. | Sziráki A, Tyshkovskiy A, Gladyshev VN | Aging cell | 29575528 | Aging Cell | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29575528 |
| Intrinsic Versus Extrinsic Cancer Risk Factors and Aging. | Podolskiy DI, Gladyshev VN | Trends in molecular medicine | 27544777 | Trends Mol Med | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27544777 |
| DNA methylation aging clocks: challenges and recommendations. | Bell CG, Lowe R, Adams PD, Baccarelli AA, Beck S, Bell JT, Christensen BC, Gladyshev VN, Heijmans BT, Horvath S, Ideker T, Issa JJ, Kelsey KT, Marioni RE, Reik W, Relton CL, Schalkwyk LC, Teschendorff AE, Wagner W, Zhang K, Rakyan VK | Genome biology | 31767039 | Genome Biol | 2019 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/31767039 |
| Organization of the Mammalian Ionome According to Organ Origin, Lineage Specialization, and Longevity. | Ma S, Lee SG, Kim EB, Park TJ, Seluanov A, Gorbunova V, Buffenstein R, Seravalli J, Gladyshev VN | Cell reports | 26549444 | Cell Rep | 2015 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/26549444 |
| Translation fidelity coevolves with longevity. | Ke Z, Mallik P, Johnson AB, Luna F, Nevo E, Zhang ZD, Gladyshev VN, Seluanov A, Gorbunova V | Aging cell | 28707419 | Aging Cell | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28707419 |
| Beaver and Naked Mole Rat Genomes Reveal Common Paths to Longevity. | Zhou X, Dou Q, Fan G, Zhang Q, Sanderford M, Kaya A, Johnson J, Karlsson EK, Tian X, Mikhalchenko A, Kumar S, Seluanov A, Zhang ZD, Gorbunova V, Liu X, Gladyshev VN | Cell reports | 32726638 | Cell Rep | 2020 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/32726638 |
| INK4 locus of the tumor-resistant rodent, the naked mole rat, expresses a functional p15/p16 hybrid isoform. | Tian X, Azpurua J, Ke Z, Augereau A, Zhang ZD, Vijg J, Gladyshev VN, Gorbunova V, Seluanov A | Proceedings of the National Academy of Sciences of the United States of America | 25550505 | Proc Natl Acad Sci U S A | 2015 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/25550505 |
| Aging: progressive decline in fitness due to the rising deleteriome adjusted by genetic, environmental, and stochastic processes. | Gladyshev VN | Aging cell | 27060562 | Aging Cell | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27060562 |
| Core Differences in Synaptic Signaling Between Primary Visual and Dorsolateral Prefrontal Cortex. | Yang ST, Wang M, Paspalas CD, Crimins JL, Altman MT, Mazer JA, Arnsten AFT | Cerebral cortex (New York, N.Y. : 1991) | 29351585 | Cereb Cortex | 2018 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/29351585 |
| Ketamine's Antidepressant Actions: Potential Mechanisms in the Primate Medial Prefrontal Circuits That Represent Aversive Experience. | Arnsten AF, Murray JD, Seo H, Lee D | Biological psychiatry | 27079495 | Biol Psychiatry | 2016 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/27079495 |
| Studies of aging nonhuman primates illuminate the etiology of early-stage Alzheimer's-like neuropathology: An evolutionary perspective. | Arnsten AFT, Datta D, Preuss TM | American journal of primatology | 33960505 | Am J Primatol | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33960505 |
| Hypothesis: Tau pathology is an initiating factor in sporadic Alzheimer's disease. | Arnsten AFT, Datta D, Del Tredici K, Braak H | Alzheimer's & dementia : the journal of the Alzheimer's Association | 33075193 | Alzheimers Dement | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33075193 |
| Age-related calcium dysregulation linked with tau pathology and impaired cognition in non-human primates. | Datta D, Leslie SN, Wang M, Morozov YM, Yang S, Mentone S, Zeiss C, Duque A, Rakic P, Horvath TL, van Dyck CH, Nairn AC, Arnsten AFT | Alzheimer's & dementia : the journal of the Alzheimer's Association | 33829643 | Alzheimers Dement | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33829643 |
| Targeting Prefrontal Cortical Systems for Drug Development: Potential Therapies for Cognitive Disorders. | Arnsten AF, Wang M | Annual review of pharmacology and toxicology | 26738476 | Annu Rev Pharmacol Toxicol | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26738476 |
| The Effects of Stress Exposure on Prefrontal Cortex: Translating Basic Research into Successful Treatments for Post-Traumatic Stress Disorder. | Arnsten AF, Raskind MA, Taylor FB, Connor DF | Neurobiology of stress | 25436222 | Neurobiol Stress | 2015 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/25436222 |
| Evolution in Neuromodulation-The Differential Roles of Acetylcholine in Higher Order Association vs. Primary Visual Cortices. | Galvin VC, Arnsten AFT, Wang M | Frontiers in neural circuits | 30210306 | Front Neural Circuits | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30210306 |
| The 7q11.23 Protein DNAJC30 Interacts with ATP Synthase and Links Mitochondria to Brain Development. | Tebbenkamp ATN, Varela L, Choi J, Paredes MI, Giani AM, Song JE, Sestan-Pesa M, Franjic D, Sousa AMM, Liu ZW, Li M, Bichsel C, Koch M, Szigeti-Buck K, Liu F, Li Z, Kawasawa YI, Paspalas CD, Mineur YS, Prontera P, Merla G, Picciotto MR, Arnsten AFT, Horvath TL, Sestan N | Cell | 30318146 | Cell | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30318146 |
| A novel dopamine D1 receptor agonist excites delay-dependent working memory-related neuronal firing in primate dorsolateral prefrontal cortex. | Wang M, Datta D, Enwright J, Galvin V, Yang ST, Paspalas C, Kozak R, Gray DL, Lewis DA, Arnsten AFT | Neuropharmacology | 30858103 | Neuropharmacology | 2019 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/30858103 |
| Ultrastructural evidence for impaired mitochondrial fission in the aged rhesus monkey dorsolateral prefrontal cortex. | Morozov YM, Datta D, Paspalas CD, Arnsten AFT | Neurobiology of aging | 28027494 | Neurobiol Aging | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/28027494 |
| Alzheimer's-like pathology in aging rhesus macaques: Unique opportunity to study the etiology and treatment of Alzheimer's disease. | Arnsten AFT, Datta D, Leslie S, Yang ST, Wang M, Nairn AC | Proceedings of the National Academy of Sciences of the United States of America | 31871209 | Proc Natl Acad Sci U S A | 2019 Dec 26 | https://www.ncbi.nlm.nih.gov/pubmed/31871209 |
| Interaction Between HCN and Slack Channels Regulates mPFC Pyramidal Cell Excitability and Working Memory. | Wu J, El-Hassar L, Datta D, Thomas M, Zhang Y, Jenkins DP, DeLuca NJ, Chatterjee M, Gribkoff VK, Arnsten AFT, Kaczmarek LK | Research square | 37205397 | Res Sq | 2023 May 4 | https://www.ncbi.nlm.nih.gov/pubmed/37205397 |
| Stress weakens prefrontal networks: molecular insults to higher cognition. | Arnsten AF | Nature neuroscience | 26404712 | Nat Neurosci | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26404712 |
| Dopamine's Actions in Primate Prefrontal Cortex: Challenges for Treating Cognitive Disorders. | Arnsten AF, Wang M, Paspalas CD | Pharmacological reviews | 26106146 | Pharmacol Rev | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26106146 |
| Mapping Phosphodiesterase 4D (PDE4D) in Macaque Dorsolateral Prefrontal Cortex: Postsynaptic Compartmentalization in Layer III Pyramidal Cell Circuits. | Datta D, Enwright JF, Arion D, Paspalas CD, Morozov YM, Lewis DA, Arnsten AFT | Frontiers in neuroanatomy | 33328902 | Front Neuroanat | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/33328902 |
| Role of KCNQ potassium channels in stress-induced deficit of working memory. | Arnsten AFT, Jin LE, Gamo NJ, Ramos B, Paspalas CD, Morozov YM, Kata A, Bamford NS, Yeckel MF, Kaczmarek LK, El-Hassar L | Neurobiology of stress | 31832507 | Neurobiol Stress | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31832507 |
| Phosphodiesterase PDE4D Is Decreased in Frontal Cortex of Aged Rats and Positively Correlated With Working Memory Performance and Inversely Correlated With PKA Phosphorylation of Tau. | Leslie SN, Datta D, Christensen KR, van Dyck CH, Arnsten AFT, Nairn AC | Frontiers in aging neuroscience | 33192469 | Front Aging Neurosci | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/33192469 |
| Persistent Spiking Activity Underlies Working Memory. | Constantinidis C, Funahashi S, Lee D, Murray JD, Qi XL, Wang M, Arnsten AFT | The Journal of neuroscience : the official journal of the Society for Neuroscience | 30089641 | J Neurosci | 2018 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/30089641 |
| The aged rhesus macaque manifests Braak stage III/IV Alzheimer's-like pathology. | Paspalas CD, Carlyle BC, Leslie S, Preuss TM, Crimins JL, Huttner AJ, van Dyck CH, Rosene DL, Nairn AC, Arnsten AFT | Alzheimer's & dementia : the journal of the Alzheimer's Association | 29241829 | Alzheimers Dement | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29241829 |
| Classical complement cascade initiating C1q protein within neurons in the aged rhesus macaque dorsolateral prefrontal cortex. | Datta D, Leslie SN, Morozov YM, Duque A, Rakic P, van Dyck CH, Nairn AC, Arnsten AFT | Journal of neuroinflammation | 31906973 | J Neuroinflammation | 2020 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/31906973 |
| Interrogating the Etiology of Sporadic Alzheimer's Disease Using Aging Rhesus Macaques: Cellular, Molecular, and Cortical Circuitry Perspectives. | Datta D | The journals of gerontology. Series A, Biological sciences and medical sciences | 37279946 | J Gerontol A Biol Sci Med Sci | 2023 Aug 27 | https://www.ncbi.nlm.nih.gov/pubmed/37279946 |
| Noradrenergic α1-Adrenoceptor Actions in the Primate Dorsolateral Prefrontal Cortex. | Datta D, Yang ST, Galvin VC, Solder J, Luo F, Morozov YM, Arellano J, Duque A, Rakic P, Arnsten AFT, Wang M | The Journal of neuroscience : the official journal of the Society for Neuroscience | 30755491 | J Neurosci | 2019 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/30755491 |
| Unique Molecular Regulation of Higher-Order Prefrontal Cortical Circuits: Insights into the Neurobiology of Schizophrenia. | Datta D, Arnsten AFT | ACS chemical neuroscience | 29470055 | ACS Chem Neurosci | 2018 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/29470055 |
| Ameliorating treatment-refractory depression with intranasal ketamine: potential NMDA receptor actions in the pain circuitry representing mental anguish. | Opler LA, Opler MG, Arnsten AF | CNS spectrums | 25619798 | CNS Spectr | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25619798 |
| cAMP-PKA phosphorylation of tau confers risk for degeneration in aging association cortex. | Carlyle BC, Nairn AC, Wang M, Yang Y, Jin LE, Simen AA, Ramos BP, Bordner KA, Craft GE, Davies P, Pletikos M, Šestan N, Arnsten AF, Paspalas CD | Proceedings of the National Academy of Sciences of the United States of America | 24707050 | Proc Natl Acad Sci U S A | 2014 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/24707050 |
| Novel Dopamine Therapeutics for Cognitive Deficits in Schizophrenia. | Arnsten AF, Girgis RR, Gray DL, Mailman RB | Biological psychiatry | 26946382 | Biol Psychiatry | 2017 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/26946382 |
| The African turquoise killifish: A research organism to study vertebrate aging and diapause. | Hu CK, Brunet A | Aging cell | 29573324 | Aging Cell | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29573324 |
| Non-model model organisms. | Russell JJ, Theriot JA, Sood P, Marshall WF, Landweber LF, Fritz-Laylin L, Polka JK, Oliferenko S, Gerbich T, Gladfelter A, Umen J, Bezanilla M, Lancaster MA, He S, Gibson MC, Goldstein B, Tanaka EM, Hu CK, Brunet A | BMC biology | 28662661 | BMC Biol | 2017 Jun 29 | https://www.ncbi.nlm.nih.gov/pubmed/28662661 |
| Epigenetic regulation of ageing: linking environmental inputs to genomic stability. | Benayoun BA, Pollina EA, Brunet A | Nature reviews. Molecular cell biology | 26373265 | Nat Rev Mol Cell Biol | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26373265 |
| Shockingly Early: Chromatin-Mediated Loss of the Heat Shock Response. | Booth LN, Brunet A | Molecular cell | 26295957 | Mol Cell | 2015 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/26295957 |
| The African Turquoise Killifish Genome Provides Insights into Evolution and Genetic Architecture of Lifespan. | Valenzano DR, Benayoun BA, Singh PP, Zhang E, Etter PD, Hu CK, Clément-Ziza M, Willemsen D, Cui R, Harel I, Machado BE, Yee MC, Sharp SC, Bustamante CD, Beyer A, Johnson EA, Brunet A | Cell | 26638078 | Cell | 2015 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/26638078 |
| Mono-unsaturated fatty acids link H3K4me3 modifiers to C. elegans lifespan. | Han S, Schroeder EA, Silva-García CG, Hebestreit K, Mair WB, Brunet A | Nature | 28379943 | Nature | 2017 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/28379943 |
| Single-Cell Transcriptomic Analysis Defines Heterogeneity and Transcriptional Dynamics in the Adult Neural Stem Cell Lineage. | Dulken BW, Leeman DS, Boutet SC, Hebestreit K, Brunet A | Cell reports | 28099854 | Cell Rep | 2017 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/28099854 |
| The Aging Epigenome. | Booth LN, Brunet A | Molecular cell | 27259204 | Mol Cell | 2016 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/27259204 |
| Lipid Profiles and Signals for Long Life. | Schroeder EA, Brunet A | Trends in endocrinology and metabolism: TEM | 26439976 | Trends Endocrinol Metab | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26439976 |
| Males shorten the life span of C. elegans hermaphrodites via secreted compounds. | Maures TJ, Booth LN, Benayoun BA, Izrayelit Y, Schroeder FC, Brunet A | Science (New York, N.Y.) | 24292626 | Science | 2014 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/24292626 |
| Bridging the transgenerational gap with epigenetic memory. | Lim JP, Brunet A | Trends in genetics : TIG | 23410786 | Trends Genet | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23410786 |
| Variability in paralimbic dopamine signaling correlates with subjective responses to d-amphetamine. | Smith CT, Dang LC, Cowan RL, Kessler RM, Zald DH | Neuropharmacology | 27174408 | Neuropharmacology | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27174408 |
| The Genetics of Aging: A Vertebrate Perspective. | Singh PP, Demmitt BA, Nath RD, Brunet A | Cell | 30901541 | Cell | 2019 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/30901541 |
| Changes in regeneration-responsive enhancers shape regenerative capacities in vertebrates. | Wang W, Hu CK, Zeng A, Alegre D, Hu D, Gotting K, Ortega Granillo A, Wang Y, Robb S, Schnittker R, Zhang S, Alegre D, Li H, Ross E, Zhang N, Brunet A, Sánchez Alvarado A | Science (New York, N.Y.) | 32883834 | Science | 2020 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/32883834 |
| The impact of common dopamine D2 receptor gene polymorphisms on D2/3 receptor availability: C957T as a key determinant in putamen and ventral striatum. | Smith CT, Dang LC, Buckholtz JW, Tetreault AM, Cowan RL, Kessler RM, Zald DH | Translational psychiatry | 28398340 | Transl Psychiatry | 2017 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/28398340 |
| Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans. | Daugherty AC, Yeo RW, Buenrostro JD, Greenleaf WJ, Kundaje A, Brunet A | Genome research | 29141961 | Genome Res | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29141961 |
| Remodeling of epigenome and transcriptome landscapes with aging in mice reveals widespread induction of inflammatory responses. | Benayoun BA, Pollina EA, Singh PP, Mahmoudi S, Harel I, Casey KM, Dulken BW, Kundaje A, Brunet A | Genome research | 30858345 | Genome Res | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30858345 |
| A platform for rapid exploration of aging and diseases in a naturally short-lived vertebrate. | Harel I, Benayoun BA, Machado B, Singh PP, Hu CK, Pech MF, Valenzano DR, Zhang E, Sharp SC, Artandi SE, Brunet A | Cell | 25684364 | Cell | 2015 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/25684364 |
| Vertebrate diapause preserves organisms long term through Polycomb complex members. | Hu CK, Wang W, Brind'Amour J, Singh PP, Reeves GA, Lorincz MC, Alvarado AS, Brunet A | Science (New York, N.Y.) | 32079766 | Science | 2020 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/32079766 |
| H3K4me3 breadth is linked to cell identity and transcriptional consistency. | Benayoun BA, Pollina EA, Ucar D, Mahmoudi S, Karra K, Wong ED, Devarajan K, Daugherty AC, Kundaje AB, Mancini E, Hitz BC, Gupta R, Rando TA, Baker JC, Snyder MP, Cherry JM, Brunet A | Cell | 25083876 | Cell | 2014 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/25083876 |
| C. elegans ADARs antagonize silencing of cellular dsRNAs by the antiviral RNAi pathway. | Reich DP, Tyc KM, Bass BL | Genes & development | 29483152 | Genes Dev | 2018 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/29483152 |
| PKR activation by noncanonical ligands: a 5'-triphosphate requirement versus antisense contamination. | Safran SA, Eckert DM, Leslie EA, Bass BL | RNA (New York, N.Y.) | 31239298 | RNA | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31239298 |
| Inverted repeat structures are associated with essential and highly expressed genes on C. elegans autosome distal arms. | Reich DP, Bass BL | RNA (New York, N.Y.) | 30190375 | RNA | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30190375 |
| Genome-wide analysis reveals mechanisms modulating autophagy in normal brain aging and in Alzheimer's disease. | Lipinski MM, Zheng B, Lu T, Yan Z, Py BF, Ng A, Xavier RJ, Li C, Yankner BA, Scherzer CR, Yuan J | Proceedings of the National Academy of Sciences of the United States of America | 20660724 | Proc Natl Acad Sci U S A | 2010 Aug 10 | https://www.ncbi.nlm.nih.gov/pubmed/20660724 |
| Sorting Out Presenilins in Alzheimer's Disease. | Wolfe MS, Yankner BA | Cell | 27368096 | Cell | 2016 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/27368096 |
| Altered social behavior and neuronal development in mice lacking the Uba6-Use1 ubiquitin transfer system. | Lee PC, Dodart JC, Aron L, Finley LW, Bronson RT, Haigis MC, Yankner BA, Harper JW | Molecular cell | 23499007 | Mol Cell | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23499007 |
| Sustained axon regeneration induced by co-deletion of PTEN and SOCS3. | Sun F, Park KK, Belin S, Wang D, Lu T, Chen G, Zhang K, Yeung C, Feng G, Yankner BA, He Z | Nature | 22056987 | Nature | 2011 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/22056987 |
| Slowing Down Aging. | Meyer K, Yankner BA | Cell metabolism | 28978424 | Cell Metab | 2017 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/28978424 |
| Neural mechanisms of ageing and cognitive decline. | Bishop NA, Lu T, Yankner BA | Nature | 20336135 | Nature | 2010 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/20336135 |
| Negative regulation of Vps34 by Cdk mediated phosphorylation. | Furuya T, Kim M, Lipinski M, Li J, Kim D, Lu T, Shen Y, Rameh L, Yankner B, Tsai LH, Yuan J | Molecular cell | 20513426 | Mol Cell | 2010 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/20513426 |
| The histone demethylase LSD1/KDM1A promotes the DNA damage response. | Mosammaparast N, Kim H, Laurent B, Zhao Y, Lim HJ, Majid MC, Dango S, Luo Y, Hempel K, Sowa ME, Gygi SP, Steen H, Harper JW, Yankner B, Shi Y | The Journal of cell biology | 24217620 | J Cell Biol | 2013 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/24217620 |
| CHEX-seq detects single-cell genomic single-stranded DNA with catalytical potential. | Lu Y, Lee J, Li J, Allu SR, Wang J, Kim H, Bullaughey KL, Fisher SA, Nordgren CE, Rosario JG, Anderson SA, Ulyanova AV, Brem S, Chen HI, Wolf JA, Grady MS, Vinogradov SA, Kim J, Eberwine J | Nature communications | 37963886 | Nat Commun | 2023 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/37963886 |
| Subcellular omics: a new frontier pushing the limits of resolution, complexity and throughput. | Eberwine J, Kim J, Anafi RC, Brem S, Bucan M, Fisher SA, Grady MS, Herr AE, Issadore D, Jeong H, Kim H, Lee D, Rubakhin S, Sul JY, Sweedler JV, Wolf JA, Zaret KS, Zou J | Nature methods | 36899160 | Nat Methods | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36899160 |
| Caspase-Activated Oligonucleotide Probe. | Yang L, Eberwine JH, Dmochowski IJ | Bioconjugate chemistry | 32786369 | Bioconjug Chem | 2020 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/32786369 |
