NIH Director's Transformative Research Award
NIH Director's Transformative Research 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 |
|---|---|---|---|---|---|---|
| NMR: an essential structural tool for integrative studies of T cell development, pMHC ligand recognition and TCR mechanobiology. | Mallis RJ, Brazin KN, Duke-Cohan JS, Hwang W, Wang JH, Wagner G, Arthanari H, Lang MJ, Reinherz EL | Journal of biomolecular NMR | 30815789 | J Biomol NMR | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30815789 |
| αβ T Cell Receptor Mechanosensing Forces out Serial Engagement. | Feng Y, Reinherz EL, Lang MJ | Trends in immunology | 30060805 | Trends Immunol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30060805 |
| TCR-pMHC encounter differentially regulates transcriptomes of tissue-resident CD8 T cells. | Yoshizawa A, Bi K, Keskin DB, Zhang G, Reinhold B, Reinherz EL | European journal of immunology | 28872670 | Eur J Immunol | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28872670 |
| The T Cell Antigen Receptor α Transmembrane Domain Coordinates Triggering through Regulation of Bilayer Immersion and CD3 Subunit Associations. | Brazin KN, Mallis RJ, Boeszoermenyi A, Feng Y, Yoshizawa A, Reche PA, Kaur P, Bi K, Hussey RE, Duke-Cohan JS, Song L, Wagner G, Arthanari H, Lang MJ, Reinherz EL | Immunity | 30389415 | Immunity | 2018 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/30389415 |
| Mosaic Somatic Gene Recombination as a Potentially Unifying Hypothesis for Alzheimer's Disease. | Kaeser GE, Chun J | Frontiers in genetics | 32457796 | Front Genet | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32457796 |
| The Gene Conundrum in Alzheimer's Disease. | Chun J | Cerebrum : the Dana forum on brain science | 32206173 | Cerebrum | 2019 Nov-Dec | https://www.ncbi.nlm.nih.gov/pubmed/32206173 |
| Reply to: APP gene copy number changes reflect exogenous contamination. | Lee MH, Liu CS, Zhu Y, Kaeser GE, Rivera R, Romanow WJ, Kihara Y, Chun J | Nature | 32814882 | Nature | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32814882 |
| Brain cell somatic gene recombination and its phylogenetic foundations. | Kaeser G, Chun J | The Journal of biological chemistry | 32699111 | J Biol Chem | 2020 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/32699111 |
| The African Turquoise Killifish: A Scalable Vertebrate Model for Aging and Other Complex Phenotypes. | Boos F, Chen J, Brunet A | Cold Spring Harbor protocols | 37100468 | Cold Spring Harb Protoc | 2024 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/37100468 |
| Tutorial: practical considerations for tissue clearing and imaging. | Weiss KR, Voigt FF, Shepherd DP, Huisken J | Nature protocols | 34021294 | Nat Protoc | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34021294 |
| Dermomyotome-derived endothelial cells migrate to the dorsal aorta to support hematopoietic stem cell emergence. | Sahai-Hernandez P, Pouget C, Eyal S, Svoboda O, Chacon J, Grimm L, Gjøen T, Traver D | eLife | 37695317 | Elife | 2023 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/37695317 |
| Cardiac function modulates endocardial cell dynamics to shape the cardiac outflow tract. | Sidhwani P, Leerberg DM, Boezio GLM, Capasso TL, Yang H, Chi NC, Roman BL, Stainier DYR, Yelon D | Development (Cambridge, England) | 32439760 | Development | 2020 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/32439760 |
| Deconvolution of polygenic risk score in single cells unravels cellular and molecular heterogeneity of complex human diseases. | Zhang S, Shu H, Zhou J, Rubin-Sigler J, Yang X, Liu Y, Cooper-Knock J, Monte E, Zhu C, Tu S, Li H, Tong M, Ecker JR, Ichida JK, Shen Y, Zeng J, Tsao PS, Snyder MP | bioRxiv : the preprint server for biology | 38798507 | bioRxiv | 2024 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/38798507 |
| CLIP-Seq analysis enables the design of protective ribosomal RNA bait oligonucleotides against C9ORF72 ALS/FTD poly-GR pathophysiology. | Ortega JA, Sasselli IR, Boccitto M, Fleming AC, Fortuna TR, Li Y, Sato K, Clemons TD, Mckenna ED, Nguyen TP, Anderson EN, Asin J, Ichida JK, Pandey UB, Wolin SL, Stupp SI, Kiskinis E | Science advances | 37948524 | Sci Adv | 2023 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/37948524 |
| PIKFYVE inhibition mitigates disease in models of diverse forms of ALS. | Hung ST, Linares GR, Chang WH, Eoh Y, Krishnan G, Mendonca S, Hong S, Shi Y, Santana M, Kueth C, Macklin-Isquierdo S, Perry S, Duhaime S, Maios C, Chang J, Perez J, Couto A, Lai J, Li Y, Alworth SV, Hendricks E, Wang Y, Zlokovic BV, Dickman DK, Parker JA, Zarnescu DC, Gao FB, Ichida JK | Cell | 36754049 | Cell | 2023 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/36754049 |
| Deep learning modeling of rare noncoding genetic variants in human motor neurons defines CCDC146 as a therapeutic target for ALS. | Zhang S, Moll T, Rubin-Sigler J, Tu S, Li S, Yuan E, Liu M, Butt A, Harvey C, Gornall S, Alhalthli E, Shaw A, Souza CDS, Ferraiuolo L, Hornstein E, Shelkovnikova T, van Dijk CH, Timpanaro IS, Kenna KP, Zeng J, Tsao PS, Shaw PJ, Ichida JK, Cooper-Knock J, Snyder MP | medRxiv : the preprint server for health sciences | 38633814 | medRxiv | 2024 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/38633814 |
| SYF2 suppression mitigates neurodegeneration in models of diverse forms of ALS. | Linares GR, Li Y, Chang WH, Rubin-Sigler J, Mendonca S, Hong S, Eoh Y, Guo W, Huang YH, Chang J, Tu S, Dorjsuren N, Santana M, Hung ST, Yu J, Perez J, Chickering M, Cheng TY, Huang CC, Lee SJ, Deng HJ, Bach KT, Gray K, Subramanyam V, Rosenfeld J, Alworth SV, Goodarzi H, Ichida JK | Cell stem cell | 36736291 | Cell Stem Cell | 2023 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/36736291 |
| Environmental risk scores of persistent organic pollutants associate with higher ALS risk and shorter survival in a new Michigan case/control cohort. | Goutman SA, Boss J, Jang DG, Mukherjee B, Richardson RJ, Batterman S, Feldman EL | Journal of neurology, neurosurgery, and psychiatry | 37758454 | J Neurol Neurosurg Psychiatry | 2024 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/37758454 |
| Nanoplastics and Neurodegeneration in ALS. | Eisen A, Pioro EP, Goutman SA, Kiernan MC | Brain sciences | 38790450 | Brain Sci | 2024 May 7 | https://www.ncbi.nlm.nih.gov/pubmed/38790450 |
| Occupational history associates with ALS survival and onset segment. | Goutman SA, Boss J, Godwin C, Mukherjee B, Feldman EL, Batterman SA | Amyotrophic lateral sclerosis & frontotemporal degeneration | 36193557 | Amyotroph Lateral Scler Frontotemporal Degener | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/36193557 |
| Amyotrophic lateral sclerosis. | Feldman EL, Goutman SA, Petri S, Mazzini L, Savelieff MG, Shaw PJ, Sobue G | Lancet (London, England) | 36116464 | Lancet | 2022 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/36116464 |
| Priorities and Recommendations to Make ALS a Livable Disease Emanating from the 2024 National Academies of Sciences, Engineering, and Medicine Report Living with ALS. | Howard IM, Babu S, Carter C, Sakowski SA, Kurent JE, Cudkowicz ME, Feldman EL | Annals of neurology | 39390661 | Ann Neurol | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39390661 |
| Impact of the Adverse Social Exposome on Survival in Individuals With Amyotrophic Lateral Sclerosis. | Jang DG, Kind AJ, Patterson A, Pedde M, Powell WR, Feldman EL, Goutman SA | Neurology | 39879575 | Neurology | 2025 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/39879575 |
| Recent advances in the diagnosis and prognosis of amyotrophic lateral sclerosis. | Goutman SA, Hardiman O, Al-Chalabi A, Chió A, Savelieff MG, Kiernan MC, Feldman EL | The Lancet. Neurology | 35334233 | Lancet Neurol | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35334233 |
| Emerging insights into the complex genetics and pathophysiology of amyotrophic lateral sclerosis. | Goutman SA, Hardiman O, Al-Chalabi A, Chió A, Savelieff MG, Kiernan MC, Feldman EL | The Lancet. Neurology | 35334234 | Lancet Neurol | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35334234 |
| Role of the Exposome in Neurodegenerative Disease: Recent Insights and Future Directions. | Sakowski SA, Koubek EJ, Chen KS, Goutman SA, Feldman EL | Annals of neurology | 38411261 | Ann Neurol | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/38411261 |
| Improving prediction models of amyotrophic lateral sclerosis (ALS) using polygenic, pre-existing conditions, and survey-based risk scores in the UK Biobank. | Jin W, Boss J, Bakulski KM, Goutman SA, Feldman EL, Fritsche LG, Mukherjee B | medRxiv : the preprint server for health sciences | 38585910 | medRxiv | 2024 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/38585910 |
| Metal mixtures associate with higher amyotrophic lateral sclerosis risk and mortality independent of genetic risk and correlate to self-reported exposures: a case-control study. | Jang DG, Dou J, Koubek EJ, Teener S, Zhao L, Bakulski KM, Mukherjee B, Batterman SA, Feldman EL, Goutman SA | medRxiv : the preprint server for health sciences | 38464233 | medRxiv | 2024 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/38464233 |
| Epigenetic age acceleration is associated with occupational exposures, sex, and survival in amyotrophic lateral sclerosis. | Zhao Y, Li X, Wang K, Iyer G, Sakowski SA, Zhao L, Teener S, Bakulski KM, Dou JF, Traynor BJ, Karnovsky A, Batterman SA, Feldman EL, Sartor MA, Goutman SA | EBioMedicine | 39369616 | EBioMedicine | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39369616 |
| Longitudinal Metabolomics in Amyotrophic Lateral Sclerosis Implicates Impaired Lipid Metabolism. | Guo K, Savelieff MG, Jang DG, Teener SJ, Zhao L, Hur J, Goutman SA, Feldman EL | Annals of neurology | 39976286 | Ann Neurol | 2025 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/39976286 |
| Awareness and care practices for rare neurologic diseases among senior neurologists: A global survey. | Jang DG, Federico A, Savelieff MG, Grisold W, Mancuso M, Molnar MJ, Feldman EL, Reynolds EL, World Federation of Neurology Subspecialist Group on Rare Neurologic Diseases | Journal of the neurological sciences | 39855013 | J Neurol Sci | 2025 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/39855013 |
| Stem cell therapy for central nervous system disorders: Metabolic interactions between transplanted cells and local microenvironments. | Sakowski SA, Chen KS | Neurobiology of disease | 35988874 | Neurobiol Dis | 2022 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/35988874 |
| Gut microbiome correlates with plasma lipids in amyotrophic lateral sclerosis. | Guo K, Figueroa-Romero C, Noureldein MH, Murdock BJ, Savelieff MG, Hur J, Goutman SA, Feldman EL | Brain : a journal of neurology | 37721161 | Brain | 2024 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/37721161 |
| Peripheral Immune Profiles Predict ALS Progression in an Age- and Sex-Dependent Manner. | Murdock BJ, Zhao B, Pawlowski KD, Famie JP, Piecuch CE, Webber-Davis IF, Teener SJ, Feldman EL, Zhao L, Goutman SA | Neurology(R) neuroimmunology & neuroinflammation | 38626361 | Neurol Neuroimmunol Neuroinflamm | 2024 May | https://www.ncbi.nlm.nih.gov/pubmed/38626361 |
| Improving prediction models of amyotrophic lateral sclerosis (ALS) using polygenic, pre-existing conditions, and survey-based risk scores in the UK Biobank. | Jin W, Boss J, Bakulski KM, Goutman SA, Feldman EL, Fritsche LG, Mukherjee B | Journal of neurology | 39249108 | J Neurol | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39249108 |
| miRNA analysis reveals novel dysregulated pathways in amyotrophic lateral sclerosis. | Hur J, Paez-Colasante X, Figueroa-Romero C, Lo TW, Barmada SJ, Paulsen MT, Ljungman M, Alakwaa FM, Savelieff MG, Goutman SA, Feldman EL | Human molecular genetics | 36219176 | Hum Mol Genet | 2023 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/36219176 |
| Avocational exposure associations with ALS risk, survival, and phenotype: A Michigan-based case-control study. | Goutman SA, Boss J, Jang DG, Piecuch C, Farid H, Batra M, Mukherjee B, Feldman EL, Batterman SA | Journal of the neurological sciences | 38278093 | J Neurol Sci | 2024 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/38278093 |
| The amyotrophic lateral sclerosis exposome: recent advances and future directions. | Goutman SA, Savelieff MG, Jang DG, Hur J, Feldman EL | Nature reviews. Neurology | 37709948 | Nat Rev Neurol | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37709948 |
| Residential exposure associations with ALS risk, survival, and phenotype: a Michigan-based case-control study. | Goutman SA, Boss J, Jang DG, Piecuch C, Farid H, Batra M, Mukherjee B, Feldman EL, Batterman SA | Amyotrophic lateral sclerosis & frontotemporal degeneration | 38557405 | Amyotroph Lateral Scler Frontotemporal Degener | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38557405 |
| Variable selection with multiply-imputed datasets: choosing between stacked and grouped methods. | Du J, Boss J, Han P, Beesley LJ, Kleinsasser M, Goutman SA, Batterman S, Feldman EL, Mukherjee B | Journal of computational and graphical statistics : a joint publication of American Statistical Association, Institute of Mathematical Statistics, Interface Foundation of North America | 36644406 | J Comput Graph Stat | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36644406 |
| Cumulative Genetic Score and C9orf72 Repeat Status Independently Contribute to Amyotrophic Lateral Sclerosis Risk in 2 Case-Control Studies. | Dou J, Bakulski K, Guo K, Hur J, Zhao L, Saez-Atienzar S, Stark A, Chia R, García-Redondo A, Rojas-Garcia R, Vázquez Costa JF, Fernandez Santiago R, Bandres-Ciga S, Gómez-Garre P, Periñán MT, Mir P, Pérez-Tur J, Cardona F, Menendez-Gonzalez M, Riancho J, Borrego-Hernández D, Galán-Dávila L, Infante Ceberio J, Pastor P, Paradas C, Dols-Icardo O, Traynor BJ, Feldman EL, Goutman SA, Spanish Neurological Consortium | Neurology. Genetics | 37293291 | Neurol Genet | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37293291 |
| Multiple metal exposures associate with higher amyotrophic lateral sclerosis risk and mortality independent of genetic risk and correlate to self-reported exposures: a case-control study. | Jang DG, Dou JF, Koubek EJ, Teener S, Zhou L, Bakulski KM, Mukherjee B, Batterman SA, Feldman EL, Goutman SA | Journal of neurology, neurosurgery, and psychiatry | 39107037 | J Neurol Neurosurg Psychiatry | 2025 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/39107037 |
| Body mass index associates with amyotrophic lateral sclerosis survival and metabolomic profiles. | Goutman SA, Boss J, Iyer G, Habra H, Savelieff MG, Karnovsky A, Mukherjee B, Feldman EL | Muscle & nerve | 36321729 | Muscle Nerve | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36321729 |
| Single-cell atlas reveals correlates of high cognitive function, dementia, and resilience to Alzheimer's disease pathology. | Mathys H, Peng Z, Boix CA, Victor MB, Leary N, Babu S, Abdelhady G, Jiang X, Ng AP, Ghafari K, Kunisky AK, Mantero J, Galani K, Lohia VN, Fortier GE, Lotfi Y, Ivey J, Brown HP, Patel PR, Chakraborty N, Beaudway JI, Imhoff EJ, Keeler CF, McChesney MM, Patel HH, Patel SP, Thai MT, Bennett DA, Kellis M, Tsai LH | Cell | 37774677 | Cell | 2023 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/37774677 |
| A polygenic score method boosted by non-additive models. | Ohta R, Tanigawa Y, Suzuki Y, Kellis M, Morishita S | Nature communications | 38811555 | Nat Commun | 2024 May 29 | https://www.ncbi.nlm.nih.gov/pubmed/38811555 |
| Multifaceted impact of specialized neuropeptide-intensive neurons on the selective vulnerability in Alzheimer's disease. | Li M, Flack N, Larsen PA | bioRxiv : the preprint server for biology | 38014130 | bioRxiv | 2024 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/38014130 |
| Power of inclusion: Enhancing polygenic prediction with admixed individuals. | Tanigawa Y, Kellis M | American journal of human genetics | 37890495 | Am J Hum Genet | 2023 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/37890495 |
| Integrated multimodal cell atlas of Alzheimer's disease. | Gabitto MI, Travaglini KJ, Rachleff VM, Kaplan ES, Long B, Ariza J, Ding Y, Mahoney JT, Dee N, Goldy J, Melief EJ, Agrawal A, Kana O, Zhen X, Barlow ST, Brouner K, Campos J, Campos J, Carr AJ, Casper T, Chakrabarty R, Clark M, Cool J, Dalley R, Darvas M, Ding SL, Dolbeare T, Egdorf T, Esposito L, Ferrer R, Fleckenstein LE, Gala R, Gary A, Gelfand E, Gloe J, Guilford N, Guzman J, Hirschstein D, Ho W, Hupp M, Jarsky T, Johansen N, Kalmbach BE, Keene LM, Khawand S, Kilgore MD, Kirkland A, Kunst M, Lee BR, Leytze M, Mac Donald CL, Malone J, Maltzer Z, Martin N, McCue R, McMillen D, Mena G, Meyerdierks E, Meyers KP, Mollenkopf T, Montine M, Nolan AL, Nyhus JK, Olsen PA, Pacleb M, Pagan CM, Peña N, Pham T, Pom CA, Postupna N, Rimorin C, Ruiz A, Saldi GA, Schantz AM, Shapovalova NV, Sorensen SA, Staats B, Sullivan M, Sunkin SM, Thompson C, Tieu M, Ting JT, Torkelson A, Tran T, Valera Cuevas NJ, Walling-Bell S, Wang MQ, Waters J, Wilson AM, Xiao M, Haynor D, Gatto NM, Jayadev S, Mufti S, Ng L, Mukherjee S, Crane PK, Latimer CS, Levi BP, Smith KA, Close JL, Miller JA, Hodge RD, Larson EB, Grabowski TJ, Hawrylycz M, Keene CD, Lein ES | Nature neuroscience | 39402379 | Nat Neurosci | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39402379 |
| Multifaceted Role of Specialized Neuropeptide-Intensive Neurons on the Selective Vulnerability to Alzheimer's Disease in the Human Brain. | Li M, Flack N, Larsen PA | Biomolecules | 39766225 | Biomolecules | 2024 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/39766225 |
| Opposing roles of p38α-mediated phosphorylation and PRMT1-mediated arginine methylation in driving TDP-43 proteinopathy. | Aikio M, Odeh HM, Wobst HJ, Lee BL, Chan Ú, Mauna JC, Mack KL, Class B, Ollerhead TA, Ford AF, Barbieri EM, Cupo RR, Drake LE, Smalley JL, Lin YT, Lam S, Thomas R, Castello N, Baral A, Beyer JN, Najar MA, Dunlop J, Gitler AD, Javaherian A, Kaye JA, Burslem GM, Brown DG, Donnelly CJ, Finkbeiner S, Moss SJ, Brandon NJ, Shorter J | Cell reports | 39817908 | Cell Rep | 2025 Jan 28 | https://www.ncbi.nlm.nih.gov/pubmed/39817908 |
| Epigenomic dissection of Alzheimer's disease pinpoints causal variants and reveals epigenome erosion. | Xiong X, James BT, Boix CA, Park YP, Galani K, Victor MB, Sun N, Hou L, Ho LL, Mantero J, Scannail AN, Dileep V, Dong W, Mathys H, Bennett DA, Tsai LH, Kellis M | Cell | 37774680 | Cell | 2023 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/37774680 |
| Local translation in primary afferents and its contribution to pain. | Gale JR, Gedeon JY, Donnelly CJ, Gold MS | Pain | 35438669 | Pain | 2022 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/35438669 |
| Integrating single-cell RNA-seq datasets with substantial batch effects. | Hrovatin K, Moinfar AA, Zappia L, Lapuerta AT, Lengerich B, Kellis M, Theis FJ | bioRxiv : the preprint server for biology | 37961672 | bioRxiv | 2024 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/37961672 |
| Single-nucleus multiregion transcriptomic analysis of brain vasculature in Alzheimer's disease. | Sun N, Akay LA, Murdock MH, Park Y, Galiana-Melendez F, Bubnys A, Galani K, Mathys H, Jiang X, Ng AP, Bennett DA, Tsai LH, Kellis M | Nature neuroscience | 37264161 | Nat Neurosci | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37264161 |
| CUTS RNA Biosensor for the Real-Time Detection of TDP-43 Loss-of-Function. | Xie L, Merjane J, Bergmann CA, Xu J, Hurtle B, Donnelly CJ | bioRxiv : the preprint server for biology | 39026766 | bioRxiv | 2024 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/39026766 |
| Disrupting pathologic phase transitions in neurodegeneration. | Hurtle BT, Xie L, Donnelly CJ | The Journal of clinical investigation | 37395272 | J Clin Invest | 2023 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/37395272 |
| Single-cell dissection of the human motor and prefrontal cortices in ALS and FTLD. | Pineda SS, Lee H, Ulloa-Navas MJ, Linville RM, Garcia FJ, Galani K, Engelberg-Cook E, Castanedes MC, Fitzwalter BE, Pregent LJ, Gardashli ME, DeTure M, Vera-Garcia DV, Hucke ATS, Oskarsson BE, Murray ME, Dickson DW, Heiman M, Belzil VV, Kellis M | Cell | 38521060 | Cell | 2024 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/38521060 |
| Human microglial state dynamics in Alzheimer's disease progression. | Sun N, Victor MB, Park YP, Xiong X, Scannail AN, Leary N, Prosper S, Viswanathan S, Luna X, Boix CA, James BT, Tanigawa Y, Galani K, Mathys H, Jiang X, Ng AP, Bennett DA, Tsai LH, Kellis M | Cell | 37774678 | Cell | 2023 Sep 28 | https://www.ncbi.nlm.nih.gov/pubmed/37774678 |
| Single-cell multiregion dissection of Alzheimer's disease. | Mathys H, Boix CA, Akay LA, Xia Z, Davila-Velderrain J, Ng AP, Jiang X, Abdelhady G, Galani K, Mantero J, Band N, James BT, Babu S, Galiana-Melendez F, Louderback K, Prokopenko D, Tanzi RE, Bennett DA, Tsai LH, Kellis M | Nature | 39048816 | Nature | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/39048816 |
| Assays to measure small molecule Hsp70 agonist activity in vitro and in vivo. | Shapiro O, Woods C, Gleixner AM, Sannino S, Ngo M, McDaniels MD, Wipf P, Hukriede NA, Donnelly CJ, Brodsky JL | Analytical biochemistry | 39522672 | Anal Biochem | 2025 Feb | https://www.ncbi.nlm.nih.gov/pubmed/39522672 |
| RNA aptamer reveals nuclear TDP-43 pathology is an early aggregation event that coincides with STMN-2 cryptic splicing and precedes clinical manifestation in ALS. | Spence H, Waldron FM, Saleeb RS, Brown AL, Rifai OM, Gilodi M, Read F, Roberts K, Milne G, Wilkinson D, O'Shaughnessy J, Pastore A, Fratta P, Shneider N, Tartaglia GG, Zacco E, Horrocks MH, Gregory JM | Acta neuropathologica | 38443601 | Acta Neuropathol | 2024 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/38443601 |
| Macromolecular interactions and geometrical confinement determine the 3D diffusion of ribosome-sized particles in live Escherichia coli cells. | Valverde-Mendez D, Sunol AM, Bratton BP, Delarue M, Hofmann JL, Sheehan JP, Gitai Z, Holt LJ, Shaevitz JW, Zia RN | bioRxiv : the preprint server for biology | 38585850 | bioRxiv | 2024 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/38585850 |
| Polysome collapse and RNA condensation fluidize the cytoplasm. | Xie Y, Shu T, Liu T, Spindler MC, Mahamid J, Hocky GM, Gresham D, Holt LJ | Molecular cell | 39059370 | Mol Cell | 2024 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/39059370 |
| Amygdala TDP-43 pathology is associated with behavioural dysfunction and ferritin accumulation in amyotrophic lateral sclerosis. | Rifai OM, Waldron FM, O'Shaughnessy J, Read FL, Gilodi M, Pastore A, Shneider N, Tartaglia GG, Zacco E, Spence H, Gregory JM | bioRxiv : the preprint server for biology | 38854008 | bioRxiv | 2024 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/38854008 |
| Condensation of LINE-1 is critical for retrotransposition. | Sil S, Keegan S, Ettefa F, Denes LT, Boeke JD, Holt LJ | eLife | 37114770 | Elife | 2023 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/37114770 |
| The environmental stress response regulates ribosome content in cell cycle-arrested S. cerevisiae. | Terhorst A, Sandikci A, Whittaker CA, Szórádi T, Holt LJ, Neurohr GE, Amon A | Frontiers in cell and developmental biology | 37123399 | Front Cell Dev Biol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37123399 |
| Macromolecular crowding: Sensing without a sensor. | Holt LJ, Delarue M | Current opinion in cell biology | 37897928 | Curr Opin Cell Biol | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37897928 |
| Phase Separation in Biology and Disease; Current Perspectives and Open Questions. | Boeynaems S, Chong S, Gsponer J, Holt L, Milovanovic D, Mitrea DM, Mueller-Cajar O, Portz B, Reilly JF, Reinkemeier CD, Sabari BR, Sanulli S, Shorter J, Sontag E, Strader L, Stachowiak J, Weber SC, White M, Zhang H, Zweckstetter M, Elbaum-Garfinkle S, Kriwacki R | Journal of molecular biology | 36690068 | J Mol Biol | 2023 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/36690068 |
| Development and Characterization of 50 nanometer diameter Genetically Encoded Multimeric Nanoparticles. | Hernandez CM, Duran-Chaparro DC, van Eeuwen T, Rout MP, Holt LJ | bioRxiv : the preprint server for biology | 39005449 | bioRxiv | 2024 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/39005449 |
| Condensed-phase signaling can expand kinase specificity and respond to macromolecular crowding. | Sang D, Shu T, Pantoja CF, Ibáñez de Opakua A, Zweckstetter M, Holt LJ | Molecular cell | 36108633 | Mol Cell | 2022 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/36108633 |
| Increased mesoscale diffusivity in response to acute glucose starvation. | Xie Y, Gresham D, Holt LJ | microPublication biology | 36908311 | MicroPubl Biol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/36908311 |
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| HITS-CLIP and integrative modeling define the Rbfox splicing-regulatory network linked to brain development and autism. | Weyn-Vanhentenryck SM, Mele A, Yan Q, Sun S, Farny N, Zhang Z, Xue C, Herre M, Silver PA, Zhang MQ, Krainer AR, Darnell RB, Zhang C | Cell reports | 24613350 | Cell Rep | 2014 Mar 27 | https://www.ncbi.nlm.nih.gov/pubmed/24613350 |
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| Hepatitis C virus RNA functionally sequesters miR-122. | Luna JM, Scheel TK, Danino T, Shaw KS, Mele A, Fak JJ, Nishiuchi E, Takacs CN, Catanese MT, de Jong YP, Jacobson IM, Rice CM, Darnell RB | Cell | 25768906 | Cell | 2015 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/25768906 |
| Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis. | Moore MJ, Zhang C, Gantman EC, Mele A, Darnell JC, Darnell RB | Nature protocols | 24407355 | Nat Protoc | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24407355 |
| NOVA2-mediated RNA regulation is required for axonal pathfinding during development. | Saito Y, Miranda-Rottmann S, Ruggiu M, Park CY, Fak JJ, Zhong R, Duncan JS, Fabella BA, Junge HJ, Chen Z, Araya R, Fritzsch B, Hudspeth AJ, Darnell RB | eLife | 27223325 | Elife | 2016 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/27223325 |
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| Regulatory consequences of neuronal ELAV-like protein binding to coding and non-coding RNAs in human brain. | Scheckel C, Drapeau E, Frias MA, Park CY, Fak J, Zucker-Scharff I, Kou Y, Haroutunian V, Ma'ayan A, Buxbaum JD, Darnell RB | eLife | 26894958 | Elife | 2016 Feb 19 | https://www.ncbi.nlm.nih.gov/pubmed/26894958 |
| FMRP regulates mRNAs encoding distinct functions in the cell body and dendrites of CA1 pyramidal neurons. | Hale CR, Sawicka K, Mora K, Fak JJ, Kang JJ, Cutrim P, Cialowicz K, Carroll TS, Darnell RB | eLife | 34939924 | Elife | 2021 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/34939924 |
| Immune Escape via a Transient Gene Expression Program Enables Productive Replication of a Latent Pathogen. | Linderman JA, Kobayashi M, Rayannavar V, Fak JJ, Darnell RB, Chao MV, Wilson AC, Mohr I | Cell reports | 28147283 | Cell Rep | 2017 Jan 31 | https://www.ncbi.nlm.nih.gov/pubmed/28147283 |
| NOVA1 acts as an oncogenic RNA-binding protein to regulate cholesterol homeostasis in human glioblastoma cells. | Saito Y, Yang Y, Saito M, Park CY, Funato K, Tabar V, Darnell RB | Proceedings of the National Academy of Sciences of the United States of America | 38416679 | Proc Natl Acad Sci U S A | 2024 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/38416679 |
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| T cells targeting a neuronal paraneoplastic antigen mediate tumor rejection and trigger CNS autoimmunity with humoral activation. | Blachère NE, Orange DE, Santomasso BD, Doerner J, Foo PK, Herre M, Fak J, Monette S, Gantman EC, Frank MO, Darnell RB | European journal of immunology | 25103845 | Eur J Immunol | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25103845 |
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| Argonaute CLIP Defines a Deregulated miR-122-Bound Transcriptome that Correlates with Patient Survival in Human Liver Cancer. | Luna JM, Barajas JM, Teng KY, Sun HL, Moore MJ, Rice CM, Darnell RB, Ghoshal K | Molecular cell | 28735896 | Mol Cell | 2017 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/28735896 |
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| miRNA-target chimeras reveal miRNA 3'-end pairing as a major determinant of Argonaute target specificity. | Moore MJ, Scheel TK, Luna JM, Park CY, Fak JJ, Nishiuchi E, Rice CM, Darnell RB | Nature communications | 26602609 | Nat Commun | 2015 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/26602609 |
| FMRP has a cell-type-specific role in CA1 pyramidal neurons to regulate autism-related transcripts and circadian memory. | Sawicka K, Hale CR, Park CY, Fak JJ, Gresack JE, Van Driesche SJ, Kang JJ, Darnell JC, Darnell RB | eLife | 31860442 | Elife | 2019 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/31860442 |
| Human Astrocyte Maturation Captured in 3D Cerebral Cortical Spheroids Derived from Pluripotent Stem Cells. | Sloan SA, Darmanis S, Huber N, Khan TA, Birey F, Caneda C, Reimer R, Quake SR, Barres BA, Paşca SP | Neuron | 28817799 | Neuron | 2017 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/28817799 |
| Purification and Characterization of Progenitor and Mature Human Astrocytes Reveals Transcriptional and Functional Differences with Mouse. | Zhang Y, Sloan SA, Clarke LE, Caneda C, Plaza CA, Blumenthal PD, Vogel H, Steinberg GK, Edwards MS, Li G, Duncan JA 3rd, Cheshier SH, Shuer LM, Chang EF, Grant GA, Gephart MG, Barres BA | Neuron | 26687838 | Neuron | 2016 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/26687838 |
| Single-Cell RNA-Seq Analysis of Infiltrating Neoplastic Cells at the Migrating Front of Human Glioblastoma. | Darmanis S, Sloan SA, Croote D, Mignardi M, Chernikova S, Samghababi P, Zhang Y, Neff N, Kowarsky M, Caneda C, Li G, Chang SD, Connolly ID, Li Y, Barres BA, Gephart MH, Quake SR | Cell reports | 29091775 | Cell Rep | 2017 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/29091775 |
| A survey of human brain transcriptome diversity at the single cell level. | Darmanis S, Sloan SA, Zhang Y, Enge M, Caneda C, Shuer LM, Hayden Gephart MG, Barres BA, Quake SR | Proceedings of the National Academy of Sciences of the United States of America | 26060301 | Proc Natl Acad Sci U S A | 2015 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/26060301 |
| An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. | Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T, Barres BA, Wu JQ | The Journal of neuroscience : the official journal of the Society for Neuroscience | 25186741 | J Neurosci | 2014 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/25186741 |
| Comprehensive Identification of Long Non-coding RNAs in Purified Cell Types from the Brain Reveals Functional LncRNA in OPC Fate Determination. | Dong X, Chen K, Cuevas-Diaz Duran R, You Y, Sloan SA, Zhang Y, Zong S, Cao Q, Barres BA, Wu JQ | PLoS genetics | 26683846 | PLoS Genet | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26683846 |
| Saturated Reconstruction of a Volume of Neocortex. | Kasthuri N, Hayworth KJ, Berger DR, Schalek RL, Conchello JA, Knowles-Barley S, Lee D, Vázquez-Reina A, Kaynig V, Jones TR, Roberts M, Morgan JL, Tapia JC, Seung HS, Roncal WG, Vogelstein JT, Burns R, Sussman DL, Priebe CE, Pfister H, Lichtman JW | Cell | 26232230 | Cell | 2015 Jul 30 | https://www.ncbi.nlm.nih.gov/pubmed/26232230 |
| Reconstruction of genetically identified neurons imaged by serial-section electron microscopy. | Joesch M, Mankus D, Yamagata M, Shahbazi A, Schalek R, Suissa-Peleg A, Meister M, Lichtman JW, Scheirer WJ, Sanes JR | eLife | 27383271 | Elife | 2016 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/27383271 |
| An Individual Interneuron Participates in Many Kinds of Inhibition and Innervates Much of the Mouse Visual Thalamus. | Morgan JL, Lichtman JW | Neuron | 32142646 | Neuron | 2020 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/32142646 |
| The Fuzzy Logic of Network Connectivity in Mouse Visual Thalamus. | Morgan JL, Berger DR, Wetzel AW, Lichtman JW | Cell | 27015312 | Cell | 2016 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/27015312 |
| Neural Circuit Inference from Function to Structure. | Real E, Asari H, Gollisch T, Meister M | Current biology : CB | 28065610 | Curr Biol | 2017 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/28065610 |
| Digital Museum of Retinal Ganglion Cells with Dense Anatomy and Physiology. | Bae JA, Mu S, Kim JS, Turner NL, Tartavull I, Kemnitz N, Jordan CS, Norton AD, Silversmith WM, Prentki R, Sorek M, David C, Jones DL, Bland D, Sterling ALR, Park J, Briggman KL, Seung HS, Eyewirers | Cell | 29775596 | Cell | 2018 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/29775596 |
| Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM reconstruction of neural circuits. | Hayworth KJ, Morgan JL, Schalek R, Berger DR, Hildebrand DG, Lichtman JW | Frontiers in neural circuits | 25018701 | Front Neural Circuits | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25018701 |
| NeuroLines: A Subway Map Metaphor for Visualizing Nanoscale Neuronal Connectivity. | Al-Awami AK, Beyer J, Strobelt H, Kasthuri N, Lichtman JW, Pfister H, Hadwiger M | IEEE transactions on visualization and computer graphics | 26356951 | IEEE Trans Vis Comput Graph | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26356951 |
| Design and Evaluation of Interactive Proofreading Tools for Connectomics. | Haehn D, Knowles-Barley S, Roberts M, Beyer J, Kasthuri N, Lichtman JW, Pfister H | IEEE transactions on visualization and computer graphics | 26356960 | IEEE Trans Vis Comput Graph | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26356960 |
| Electron Microscopic Reconstruction of Functionally Identified Cells in a Neural Integrator. | Vishwanathan A, Daie K, Ramirez AD, Lichtman JW, Aksay ERF, Seung HS | Current biology : CB | 28712570 | Curr Biol | 2017 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/28712570 |
| Methods for Mapping Neuronal Activity to Synaptic Connectivity: Lessons From Larval Zebrafish. | Wanner AA, Vishwanathan A | Frontiers in neural circuits | 30410437 | Front Neural Circuits | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/30410437 |
| Multispectral tracing in densely labeled mouse brain with nTracer. | Roossien DH, Sadis BV, Yan Y, Webb JM, Min LY, Dizaji AS, Bogart LJ, Mazuski C, Huth RS, Stecher JS, Akula S, Shen F, Li Y, Xiao T, Vandenbrink M, Lichtman JW, Hensch TK, Herzog ED, Cai D | Bioinformatics (Oxford, England) | 30715234 | Bioinformatics | 2019 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/30715234 |
| Why not connectomics? | Morgan JL, Lichtman JW | Nature methods | 23722208 | Nat Methods | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23722208 |
| Space-time wiring specificity supports direction selectivity in the retina. | Kim JS, Greene MJ, Zlateski A, Lee K, Richardson M, Turaga SC, Purcaro M, Balkam M, Robinson A, Behabadi BF, Campos M, Denk W, Seung HS, EyeWirers | Nature | 24805243 | Nature | 2014 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/24805243 |
| Neuronal cell types and connectivity: lessons from the retina. | Seung HS, Sümbül U | Neuron | 25233310 | Neuron | 2014 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/25233310 |
| The big data challenges of connectomics. | Lichtman JW, Pfister H, Shavit N | Nature neuroscience | 25349911 | Nat Neurosci | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25349911 |
| Digital tissue and what it may reveal about the brain. | Morgan JL, Lichtman JW | BMC biology | 29084528 | BMC Biol | 2017 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/29084528 |
| Developmental Rewiring between Cerebellar Climbing Fibers and Purkinje Cells Begins with Positive Feedback Synapse Addition. | Wilson AM, Schalek R, Suissa-Peleg A, Jones TR, Knowles-Barley S, Pfister H, Lichtman JW | Cell reports | 31775050 | Cell Rep | 2019 Nov 26 | https://www.ncbi.nlm.nih.gov/pubmed/31775050 |
| Clarifying Tissue Clearing. | Richardson DS, Lichtman JW | Cell | 26186186 | Cell | 2015 Jul 16 | https://www.ncbi.nlm.nih.gov/pubmed/26186186 |
| Analogous Convergence of Sustained and Transient Inputs in Parallel On and Off Pathways for Retinal Motion Computation. | Greene MJ, Kim JS, Seung HS, EyeWirers | Cell reports | 26904938 | Cell Rep | 2016 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/26904938 |
| Large-scale automatic reconstruction of neuronal processes from electron microscopy images. | Kaynig V, Vazquez-Reina A, Knowles-Barley S, Roberts M, Jones TR, Kasthuri N, Miller E, Lichtman J, Pfister H | Medical image analysis | 25791436 | Med Image Anal | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25791436 |
| Fuz mutant mice reveal shared mechanisms between ciliopathies and FGF-related syndromes. | Tabler JM, Barrell WB, Szabo-Rogers HL, Healy C, Yeung Y, Perdiguero EG, Schulz C, Yannakoudakis BZ, Mesbahi A, Wlodarczyk B, Geissmann F, Finnell RH, Wallingford JB, Liu KJ | Developmental cell | 23806618 | Dev Cell | 2013 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/23806618 |
| New Techniques for the Study of Neural Tube Defects. | Lei Y, Finnell RH | Advanced techniques in biology & medicine | 27066597 | Adv Tech Biol Med | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27066597 |
| Roles for small noncoding RNAs in silencing of retrotransposons in the mammalian brain. | Nandi S, Chandramohan D, Fioriti L, Melnick AM, Hébert JM, Mason CE, Rajasethupathy P, Kandel ER | Proceedings of the National Academy of Sciences of the United States of America | 27791114 | Proc Natl Acad Sci U S A | 2016 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/27791114 |
| Enabling large-scale next-generation sequence assembly with Blacklight. | Couger MB, Pipes L, Squina F, Prade R, Siepel A, Palermo R, Katze MG, Mason CE, Blood PD | Concurrency and computation : practice & experience | 25294974 | Concurr Comput | 2014 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/25294974 |
| The Impact of Heterogeneity on Single-Cell Sequencing. | Goldman SL, MacKay M, Afshinnekoo E, Melnick AM, Wu S, Mason CE | Frontiers in genetics | 30881372 | Front Genet | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30881372 |
| Epigenetic Modifications in Acute Myeloid Leukemia: Prognosis, Treatment, and Heterogeneity. | Goldman SL, Hassan C, Khunte M, Soldatenko A, Jong Y, Afshinnekoo E, Mason CE | Frontiers in genetics | 30881380 | Front Genet | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30881380 |
| Identification of novel CELSR1 mutations in spina bifida. | Lei Y, Zhu H, Yang W, Ross ME, Shaw GM, Finnell RH | PloS one | 24632739 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24632739 |
| The birth of the Epitranscriptome: deciphering the function of RNA modifications. | Saletore Y, Meyer K, Korlach J, Vilfan ID, Jaffrey S, Mason CE | Genome biology | 23113984 | Genome Biol | 2012 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/23113984 |
| methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles. | Akalin A, Kormaksson M, Li S, Garrett-Bakelman FE, Figueroa ME, Melnick A, Mason CE | Genome biology | 23034086 | Genome Biol | 2012 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/23034086 |
| High-throughput RNA sequencing reveals structural differences of orthologous brain-expressed genes between western lowland gorillas and humans. | Lipovich L, Hou ZC, Jia H, Sinkler C, McGowen M, Sterner KN, Weckle A, Sugalski AB, Pipes L, Gatti DL, Mason CE, Sherwood CC, Hof PR, Kuzawa CW, Grossman LI, Goodman M, Wildman DE | The Journal of comparative neurology | 26132897 | J Comp Neurol | 2016 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/26132897 |
| Rfx2 is required for spermatogenesis in the mouse. | Shawlot W, Vazquez-Chantada M, Wallingford JB, Finnell RH | Genesis (New York, N.Y. : 2000) | 26248850 | Genesis | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26248850 |
| The impact of read length on quantification of differentially expressed genes and splice junction detection. | Chhangawala S, Rudy G, Mason CE, Rosenfeld JA | Genome biology | 26100517 | Genome Biol | 2015 Jun 23 | https://www.ncbi.nlm.nih.gov/pubmed/26100517 |
| Identification of kinase fusion oncogenes in post-Chernobyl radiation-induced thyroid cancers. | Ricarte-Filho JC, Li S, Garcia-Rendueles ME, Montero-Conde C, Voza F, Knauf JA, Heguy A, Viale A, Bogdanova T, Thomas GA, Mason CE, Fagin JA | The Journal of clinical investigation | 24135138 | J Clin Invest | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24135138 |
| Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome. | Linder B, Grozhik AV, Olarerin-George AO, Meydan C, Mason CE, Jaffrey SR | Nature methods | 26121403 | Nat Methods | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26121403 |
| Analysis of archived residual newborn screening blood spots after whole genome amplification. | Cantarel BL, Lei Y, Weaver D, Zhu H, Farrell A, Benstead-Hume G, Reese J, Finnell RH | BMC genomics | 26268606 | BMC Genomics | 2015 Aug 13 | https://www.ncbi.nlm.nih.gov/pubmed/26268606 |
| Extensive sequencing of seven human genomes to characterize benchmark reference materials. | Zook JM, Catoe D, McDaniel J, Vang L, Spies N, Sidow A, Weng Z, Liu Y, Mason CE, Alexander N, Henaff E, McIntyre AB, Chandramohan D, Chen F, Jaeger E, Moshrefi A, Pham K, Stedman W, Liang T, Saghbini M, Dzakula Z, Hastie A, Cao H, Deikus G, Schadt E, Sebra R, Bashir A, Truty RM, Chang CC, Gulbahce N, Zhao K, Ghosh S, Hyland F, Fu Y, Chaisson M, Xiao C, Trow J, Sherry ST, Zaranek AW, Ball M, Bobe J, Estep P, Church GM, Marks P, Kyriazopoulou-Panagiotopoulou S, Zheng GX, Schnall-Levin M, Ordonez HS, Mudivarti PA, Giorda K, Sheng Y, Rypdal KB, Salit M | Scientific data | 27271295 | Sci Data | 2016 Jun 7 | https://www.ncbi.nlm.nih.gov/pubmed/27271295 |
| Performance assessment of DNA sequencing platforms in the ABRF Next-Generation Sequencing Study. | Foox J, Tighe SW, Nicolet CM, Zook JM, Byrska-Bishop M, Clarke WE, Khayat MM, Mahmoud M, Laaguiby PK, Herbert ZT, Warner D, Grills GS, Jen J, Levy S, Xiang J, Alonso A, Zhao X, Zhang W, Teng F, Zhao Y, Lu H, Schroth GP, Narzisi G, Farmerie W, Sedlazeck FJ, Baldwin DA, Mason CE | Nature biotechnology | 34504351 | Nat Biotechnol | 2021 Sep | https://www.ncbi.nlm.nih.gov/pubmed/34504351 |
| Genome-wide investigation identifies a rare copy-number variant burden associated with human spina bifida. | Wolujewicz P, Aguiar-Pulido V, AbdelAleem A, Nair V, Thareja G, Suhre K, Shaw GM, Finnell RH, Elemento O, Ross ME | Genetics in medicine : official journal of the American College of Medical Genetics | 33686259 | Genet Med | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/33686259 |
| CIC missense variants contribute to susceptibility for spina bifida. | Han X, Cao X, Aguiar-Pulido V, Yang W, Karki M, Ramirez PAP, Cabrera RM, Lin YL, Wlodarczyk BJ, Shaw GM, Ross ME, Zhang C, Finnell RH, Lei Y | Human mutation | 36054333 | Hum Mutat | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36054333 |
| Distinct evolution and dynamics of epigenetic and genetic heterogeneity in acute myeloid leukemia. | Li S, Garrett-Bakelman FE, Chung SS, Sanders MA, Hricik T, Rapaport F, Patel J, Dillon R, Vijay P, Brown AL, Perl AE, Cannon J, Bullinger L, Luger S, Becker M, Lewis ID, To LB, Delwel R, Löwenberg B, Döhner H, Döhner K, Guzman ML, Hassane DC, Roboz GJ, Grimwade D, Valk PJ, D'Andrea RJ, Carroll M, Park CY, Neuberg D, Levine R, Melnick AM, Mason CE | Nature medicine | 27322744 | Nat Med | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27322744 |
| The Microbe Directory: An annotated, searchable inventory of microbes' characteristics. | Shaaban H, Westfall DA, Mohammad R, Danko D, Bezdan D, Afshinnekoo E, Segata N, Mason CE | Gates open research | 29630066 | Gates Open Res | 2018 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/29630066 |
| Folate-dependent methylation of septins governs ciliogenesis during neural tube closure. | Toriyama M, Toriyama M, Wallingford JB, Finnell RH | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 28432198 | FASEB J | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28432198 |
| Assessment of REPLI-g Multiple Displacement Whole Genome Amplification (WGA) Techniques for Metagenomic Applications. | Ahsanuddin S, Afshinnekoo E, Gandara J, Hakyemezoğlu M, Bezdan D, Minot S, Greenfield N, Mason CE | Journal of biomolecular techniques : JBT | 28344519 | J Biomol Tech | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28344519 |
| The pivotal regulatory landscape of RNA modifications. | Li S, Mason CE | Annual review of genomics and human genetics | 24898039 | Annu Rev Genomics Hum Genet | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24898039 |
| Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study. | Li S, Tighe SW, Nicolet CM, Grove D, Levy S, Farmerie W, Viale A, Wright C, Schweitzer PA, Gao Y, Kim D, Boland J, Hicks B, Kim R, Chhangawala S, Jafari N, Raghavachari N, Gandara J, Garcia-Reyero N, Hendrickson C, Roberson D, Rosenfeld J, Smith T, Underwood JG, Wang M, Zumbo P, Baldwin DA, Grills GS, Mason CE | Nature biotechnology | 25150835 | Nat Biotechnol | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25150835 |
| DNA hydroxymethylation profiling reveals that WT1 mutations result in loss of TET2 function in acute myeloid leukemia. | Rampal R, Alkalin A, Madzo J, Vasanthakumar A, Pronier E, Patel J, Li Y, Ahn J, Abdel-Wahab O, Shih A, Lu C, Ward PS, Tsai JJ, Hricik T, Tosello V, Tallman JE, Zhao X, Daniels D, Dai Q, Ciminio L, Aifantis I, He C, Fuks F, Tallman MS, Ferrando A, Nimer S, Paietta E, Thompson CB, Licht JD, Mason CE, Godley LA, Melnick A, Figueroa ME, Levine RL | Cell reports | 25482556 | Cell Rep | 2014 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/25482556 |
| Single-molecule sequencing detection of N6-methyladenine in microbial reference materials. | McIntyre ABR, Alexander N, Grigorev K, Bezdan D, Sichtig H, Chiu CY, Mason CE | Nature communications | 30718479 | Nat Commun | 2019 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/30718479 |
| Genome assembly and geospatial phylogenomics of the bed bug Cimex lectularius. | Rosenfeld JA, Reeves D, Brugler MR, Narechania A, Simon S, Durrett R, Foox J, Shianna K, Schatz MC, Gandara J, Afshinnekoo E, Lam ET, Hastie AR, Chan S, Cao H, Saghbini M, Kentsis A, Planet PJ, Kholodovych V, Tessler M, Baker R, DeSalle R, Sorkin LN, Kolokotronis SO, Siddall ME, Amato G, Mason CE | Nature communications | 26836631 | Nat Commun | 2016 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/26836631 |
| Performance evaluation of high-volume electret filter air samplers in aerosol microbiome research. | Bøifot KO, Gohli J, Skogan G, Dybwad M | Environmental microbiome | 33902714 | Environ Microbiome | 2020 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/33902714 |
| Dynamic evolution of clonal epialleles revealed by methclone. | Li S, Garrett-Bakelman F, Perl AE, Luger SM, Zhang C, To BL, Lewis ID, Brown AL, D'Andrea RJ, Ross ME, Levine R, Carroll M, Melnick A, Mason CE | Genome biology | 25260792 | Genome Biol | 2014 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/25260792 |
| An integrative computational approach for prioritization of genomic variants. | Dubchak I, Balasubramanian S, Wang S, Cem M, Sulakhe D, Poliakov A, Börnigen D, Xie B, Taylor A, Ma J, Paciorkowski AR, Mirzaa GM, Dave P, Agam G, Xu J, Al-Gazali L, Mason CE, Ross ME, Maltsev N, Gilliam TC | PloS one | 25506935 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25506935 |
| Assessment and improvement of Indian-origin rhesus macaque and Mauritian-origin cynomolgus macaque genome annotations using deep transcriptome sequencing data. | Peng X, Pipes L, Xiong H, Green RR, Jones DC, Ruzzo WL, Schroth GP, Mason CE, Palermo RE, Katze MG | Journal of medical primatology | 24810475 | J Med Primatol | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24810475 |
| Detecting and correcting systematic variation in large-scale RNA sequencing data. | Li S, Łabaj PP, Zumbo P, Sykacek P, Shi W, Shi L, Phan J, Wu PY, Wang M, Wang C, Thierry-Mieg D, Thierry-Mieg J, Kreil DP, Mason CE | Nature biotechnology | 25150837 | Nat Biotechnol | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25150837 |
| Autism-Like Behavior and Epigenetic Changes Associated with Autism as Consequences of In Utero Exposure to Environmental Pollutants in a Mouse Model. | Hill DS, Cabrera R, Wallis Schultz D, Zhu H, Lu W, Finnell RH, Wlodarczyk BJ | Behavioural neurology | 26586927 | Behav Neurol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26586927 |
| Complex translocation disrupting TCF4 and altering TCF4 isoform expression segregates as mild autosomal dominant intellectual disability. | Maduro V, Pusey BN, Cherukuri PF, Atkins P, du Souich C, Rupps R, Limbos M, Adams DR, Bhatt SS, Eydoux P, Links AE, Lehman A, Malicdan MC, Mason CE, Morimoto M, Mullikin JC, Sear A, Van Karnebeek C, Stankiewicz P, Gahl WA, Toro C, Boerkoel CF | Orphanet journal of rare diseases | 27179618 | Orphanet J Rare Dis | 2016 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/27179618 |
| The Power of Engaging Citizen Scientists for Scientific Progress. | Garbarino J, Mason CE | Journal of microbiology & biology education | 27047581 | J Microbiol Biol Educ | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/27047581 |
| Autoantibodies against homocysteinylated protein in a mouse model of folate deficiency-induced neural tube defects. | Denny KJ, Kelly CF, Kumar V, Witham KL, Cabrera RM, Finnell RH, Taylor SM, Jeanes A, Woodruff TM | Birth defects research. Part A, Clinical and molecular teratology | 26900104 | Birth Defects Res A Clin Mol Teratol | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26900104 |
| Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP). | Tighe S, Afshinnekoo E, Rock TM, McGrath K, Alexander N, McIntyre A, Ahsanuddin S, Bezdan D, Green SJ, Joye S, Stewart Johnson S, Baldwin DA, Bivens N, Ajami N, Carmical JR, Herriott IC, Colwell R, Donia M, Foox J, Greenfield N, Hunter T, Hoffman J, Hyman J, Jorgensen E, Krawczyk D, Lee J, Levy S, Garcia-Reyero N, Settles M, Thomas K, Gómez F, Schriml L, Kyrpides N, Zaikova E, Penterman J, Mason CE | Journal of biomolecular techniques : JBT | 28337070 | J Biomol Tech | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28337070 |
| Comprehensive analysis of mRNA methylation reveals enrichment in 3' UTRs and near stop codons. | Meyer KD, Saletore Y, Zumbo P, Elemento O, Mason CE, Jaffrey SR | Cell | 22608085 | Cell | 2012 Jun 22 | https://www.ncbi.nlm.nih.gov/pubmed/22608085 |
| Neural tube defects, folate, and immune modulation. | Denny KJ, Jeanes A, Fathe K, Finnell RH, Taylor SM, Woodruff TM | Birth defects research. Part A, Clinical and molecular teratology | 24078477 | Birth Defects Res A Clin Mol Teratol | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/24078477 |
| Characterizing multi-omic data in systems biology. | Mason CE, Porter SG, Smith TM | Advances in experimental medicine and biology | 24292960 | Adv Exp Med Biol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24292960 |
| Comprehensive evaluation of differential gene expression analysis methods for RNA-seq data. | Rapaport F, Khanin R, Liang Y, Pirun M, Krek A, Zumbo P, Mason CE, Socci ND, Betel D | Genome biology | 24020486 | Genome Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24020486 |
| An optimized algorithm for detecting and annotating regional differential methylation. | Li S, Garrett-Bakelman FE, Akalin A, Zumbo P, Levine R, To BL, Lewis ID, Brown AL, D'Andrea RJ, Melnick A, Mason CE | BMC bioinformatics | 23735126 | BMC Bioinformatics | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23735126 |
| Characterization of the public transit air microbiome and resistome reveals geographical specificity. | Leung MHY, Tong X, Bøifot KO, Bezdan D, Butler DJ, Danko DC, Gohli J, Green DC, Hernandez MT, Kelly FJ, Levy S, Mason-Buck G, Nieto-Caballero M, Syndercombe-Court D, Udekwu K, Young BG, Mason CE, Dybwad M, Lee PKH | Microbiome | 34039416 | Microbiome | 2021 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/34039416 |
| The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report. | MetaSUB International Consortium | Microbiome | 27255532 | Microbiome | 2016 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/27255532 |
| Clinical Genomics: Challenges and Opportunities. | Vijay P, McIntyre AB, Mason CE, Greenfield JP, Li S | Critical reviews in eukaryotic gene expression | 27480773 | Crit Rev Eukaryot Gene Expr | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27480773 |
| Combination Targeted Therapy to Disrupt Aberrant Oncogenic Signaling and Reverse Epigenetic Dysfunction in IDH2- and TET2-Mutant Acute Myeloid Leukemia. | Shih AH, Meydan C, Shank K, Garrett-Bakelman FE, Ward PS, Intlekofer AM, Nazir A, Stein EM, Knapp K, Glass J, Travins J, Straley K, Gliser C, Mason CE, Yen K, Thompson CB, Melnick A, Levine RL | Cancer discovery | 28193779 | Cancer Discov | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28193779 |
| Epigenetic therapy in a new era of medicine: creating and integrating molecular profiles of patients. | Afshinnekoo E, Mason CE | Annals of translational medicine | 27942527 | Ann Transl Med | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27942527 |
| N6-Methyladenosine in Flaviviridae Viral RNA Genomes Regulates Infection. | Gokhale NS, McIntyre ABR, McFadden MJ, Roder AE, Kennedy EM, Gandara JA, Hopcraft SE, Quicke KM, Vazquez C, Willer J, Ilkayeva OR, Law BA, Holley CL, Garcia-Blanco MA, Evans MJ, Suthar MS, Bradrick SS, Mason CE, Horner SM | Cell host & microbe | 27773535 | Cell Host Microbe | 2016 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/27773535 |
| A diagnostic host response biosignature for COVID-19 from RNA profiling of nasal swabs and blood. | Ng DL, Granados AC, Santos YA, Servellita V, Goldgof GM, Meydan C, Sotomayor-Gonzalez A, Levine AG, Balcerek J, Han LM, Akagi N, Truong K, Neumann NM, Nguyen DN, Bapat SP, Cheng J, Martin CS, Federman S, Foox J, Gopez A, Li T, Chan R, Chu CS, Wabl CA, Gliwa AS, Reyes K, Pan CY, Guevara H, Wadford D, Miller S, Mason CE, Chiu CY | Science advances | 33536218 | Sci Adv | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33536218 |
| Cell-free DNA (cfDNA) and Exosome Profiling from a Year-Long Human Spaceflight Reveals Circulating Biomarkers. | Bezdan D, Grigorev K, Meydan C, Pelissier Vatter FA, Cioffi M, Rao V, MacKay M, Nakahira K, Burnham P, Afshinnekoo E, Westover C, Butler D, Mozsary C, Donahoe T, Foox J, Mishra T, Lucotti S, Rana BK, Melnick AM, Zhang H, Matei I, Kelsen D, Yu K, Lyden DC, Taylor L, Bailey SM, Snyder MP, Garrett-Bakelman FE, Ossowski S, De Vlaminck I, Mason CE | iScience | 33376973 | iScience | 2020 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/33376973 |
| Genetic and epigenetic heterogeneity and the impact on cancer relapse. | Hassan C, Afshinnekoo E, Li S, Wu S, Mason CE | Experimental hematology | 28705639 | Exp Hematol | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28705639 |
| Nanopore sequencing in microgravity. | McIntyre ABR, Rizzardi L, Yu AM, Alexander N, Rosen GL, Botkin DJ, Stahl SE, John KK, Castro-Wallace SL, McGrath K, Burton AS, Feinberg AP, Mason CE | NPJ microgravity | 28725742 | NPJ Microgravity | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/28725742 |
| Assessment of pharmacogenomic agreement. | Safikhani Z, El-Hachem N, Quevedo R, Smirnov P, Goldenberg A, Juul Birkbak N, Mason C, Hatzis C, Shi L, Aerts HJ, Quackenbush J, Haibe-Kains B | F1000Research | 27408686 | F1000Res | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27408686 |
| Mutations in planar cell polarity gene SCRIB are associated with spina bifida. | Lei Y, Zhu H, Duhon C, Yang W, Ross ME, Shaw GM, Finnell RH | PloS one | 23922697 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23922697 |
| The non-human primate reference transcriptome resource (NHPRTR) for comparative functional genomics. | Pipes L, Li S, Bozinoski M, Palermo R, Peng X, Blood P, Kelly S, Weiss JM, Thierry-Mieg J, Thierry-Mieg D, Zumbo P, Chen R, Schroth GP, Mason CE, Katze MG | Nucleic acids research | 23203872 | Nucleic Acids Res | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23203872 |
| Two methods for full-length RNA sequencing for low quantities of cells and single cells. | Pan X, Durrett RE, Zhu H, Tanaka Y, Li Y, Zi X, Marjani SL, Euskirchen G, Ma C, Lamotte RH, Park IH, Snyder MP, Mason CE, Weissman SM | Proceedings of the National Academy of Sciences of the United States of America | 23267071 | Proc Natl Acad Sci U S A | 2013 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/23267071 |
| The continuing challenge of understanding, preventing, and treating neural tube defects. | Wallingford JB, Niswander LA, Shaw GM, Finnell RH | Science (New York, N.Y.) | 23449594 | Science | 2013 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/23449594 |
| Antiepileptic drugs and pregnancy outcomes. | Wlodarczyk BJ, Palacios AM, George TM, Finnell RH | American journal of medical genetics. Part A | 22711424 | Am J Med Genet A | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22711424 |
| A GCH1 haplotype and risk of neural tube defects in the National Birth Defects Prevention Study. | Lupo PJ, Chapa C, Nousome D, Duhon C, Canfield MA, Shaw GM, Finnell RH, Zhu H, National Birth Defects Prevention Study | Molecular genetics and metabolism | 23059057 | Mol Genet Metab | 2012 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23059057 |
| Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia. | Akalin A, Garrett-Bakelman FE, Kormaksson M, Busuttil J, Zhang L, Khrebtukova I, Milne TA, Huang Y, Biswas D, Hess JL, Allis CD, Roeder RG, Valk PJ, Löwenberg B, Delwel R, Fernandez HF, Paietta E, Tallman MS, Schroth GP, Mason CE, Melnick A, Figueroa ME | PLoS genetics | 22737091 | PLoS Genet | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22737091 |
| A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium. | SEQC/MAQC-III Consortium | Nature biotechnology | 25150838 | Nat Biotechnol | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25150838 |
| Tissue-specific transcriptome sequencing analysis expands the non-human primate reference transcriptome resource (NHPRTR). | Peng X, Thierry-Mieg J, Thierry-Mieg D, Nishida A, Pipes L, Bozinoski M, Thomas MJ, Kelly S, Weiss JM, Raveendran M, Muzny D, Gibbs RA, Rogers J, Schroth GP, Katze MG, Mason CE | Nucleic acids research | 25392405 | Nucleic Acids Res | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25392405 |
| Precision Metagenomics: Rapid Metagenomic Analyses for Infectious Disease Diagnostics and Public Health Surveillance. | Afshinnekoo E, Chou C, Alexander N, Ahsanuddin S, Schuetz AN, Mason CE | Journal of biomolecular techniques : JBT | 28337072 | J Biomol Tech | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/28337072 |
| Multi-omic, Single-Cell, and Biochemical Profiles of Astronauts Guide Pharmacological Strategies for Returning to Gravity. | Gertz ML, Chin CR, Tomoiaga D, MacKay M, Chang C, Butler D, Afshinnekoo E, Bezdan D, Schmidt MA, Mozsary C, Melnick A, Garrett-Bakelman F, Crucian B, Lee SMC, Zwart SR, Smith SM, Meydan C, Mason CE | Cell reports | 33242408 | Cell Rep | 2020 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/33242408 |
| Rare LRP6 variants identified in spina bifida patients. | Lei Y, Fathe K, McCartney D, Zhu H, Yang W, Ross ME, Shaw GM, Finnell RH | Human mutation | 25546815 | Hum Mutat | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25546815 |
| Genetic and epigenetic heterogeneity in acute myeloid leukemia. | Li S, Mason CE, Melnick A | Current opinion in genetics & development | 27162099 | Curr Opin Genet Dev | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27162099 |
| Genomic approaches to the assessment of human spina bifida risk. | Ross ME, Mason CE, Finnell RH | Birth defects research | 27883265 | Birth Defects Res | 2017 Jan 30 | https://www.ncbi.nlm.nih.gov/pubmed/27883265 |
| Enhanced reduced representation bisulfite sequencing for assessment of DNA methylation at base pair resolution. | Garrett-Bakelman FE, Sheridan CK, Kacmarczyk TJ, Ishii J, Betel D, Alonso A, Mason CE, Figueroa ME, Melnick AM | Journal of visualized experiments : JoVE | 25742437 | J Vis Exp | 2015 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/25742437 |
| Mutational cooperativity linked to combinatorial epigenetic gain of function in acute myeloid leukemia. | Shih AH, Jiang Y, Meydan C, Shank K, Pandey S, Barreyro L, Antony-Debre I, Viale A, Socci N, Sun Y, Robertson A, Cavatore M, de Stanchina E, Hricik T, Rapaport F, Woods B, Wei C, Hatlen M, Baljevic M, Nimer SD, Tallman M, Paietta E, Cimmino L, Aifantis I, Steidl U, Mason C, Melnick A, Levine RL | Cancer cell | 25873173 | Cancer Cell | 2015 Apr 13 | https://www.ncbi.nlm.nih.gov/pubmed/25873173 |
| Translating current biomedical therapies for long duration, deep space missions. | Iosim S, MacKay M, Westover C, Mason CE | Precision clinical medicine | 31886035 | Precis Clin Med | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31886035 |
| Systems biology analysis of human genomes points to key pathways conferring spina bifida risk. | Aguiar-Pulido V, Wolujewicz P, Martinez-Fundichely A, Elhaik E, Thareja G, Abdel Aleem A, Chalhoub N, Cuykendall T, Al-Zamer J, Lei Y, El-Bashir H, Musser JM, Al-Kaabi A, Shaw GM, Khurana E, Suhre K, Mason CE, Elemento O, Finnell RH, Ross ME | Proceedings of the National Academy of Sciences of the United States of America | 34916285 | Proc Natl Acad Sci U S A | 2021 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/34916285 |
| Haplotype diversity and sequence heterogeneity of human telomeres. | Grigorev K, Foox J, Bezdan D, Butler D, Luxton JJ, Reed J, McKenna MJ, Taylor L, George KA, Meydan C, Bailey SM, Mason CE | Genome research | 34162698 | Genome Res | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34162698 |
| Ozone Disinfection for Elimination of Bacteria and Degradation of SARS-CoV2 RNA for Medical Environments. | Westover C, Rahmatulloev S, Danko D, Afshin EE, O'Hara NB, Ounit R, Bezdan D, Mason CE | Genes | 36672826 | Genes (Basel) | 2022 Dec 28 | https://www.ncbi.nlm.nih.gov/pubmed/36672826 |
| Metalloprotein-based MRI probes. | Matsumoto Y, Jasanoff A | FEBS letters | 23376346 | FEBS Lett | 2013 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/23376346 |
| Screen-based analysis of magnetic nanoparticle libraries formed using peptidic iron oxide ligands. | Barch M, Okada S, Bartelle BB, Jasanoff A | Journal of the American Chemical Society | 25158100 | J Am Chem Soc | 2014 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/25158100 |
| Magnetic Detection of Neural Activity by Nanocoil Transducers. | Bok I, Phillips J, Zhu T, Lu J, Detienne E, Lima EA, Weiss BP, Jasanoff A, Hai A | Nano letters | 39319575 | Nano Lett | 2024 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/39319575 |
| Adventures in neurobioengineering. | Jasanoff A | ACS chemical neuroscience | 22896800 | ACS Chem Neurosci | 2012 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/22896800 |
| Magneto-fluorescent core-shell supernanoparticles. | Chen O, Riedemann L, Etoc F, Herrmann H, Coppey M, Barch M, Farrar CT, Zhao J, Bruns OT, Wei H, Guo P, Cui J, Jensen R, Chen Y, Harris DK, Cordero JM, Wang Z, Jasanoff A, Fukumura D, Reimer R, Dahan M, Jain RK, Bawendi MG | Nature communications | 25298155 | Nat Commun | 2014 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/25298155 |
| Engineering intracellular biomineralization and biosensing by a magnetic protein. | Matsumoto Y, Chen R, Anikeeva P, Jasanoff A | Nature communications | 26522873 | Nat Commun | 2015 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/26522873 |
| Molecular imaging with engineered physiology. | Desai M, Slusarczyk AL, Chapin A, Barch M, Jasanoff A | Nature communications | 27910951 | Nat Commun | 2016 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/27910951 |
| Magnetic nanosensors optimized for rapid and reversible self-assembly. | Rodriguez E, Lelyveld VS, Atanasijevic T, Okada S, Jasanoff A | Chemical communications (Cambridge, England) | 24566735 | Chem Commun (Camb) | 2014 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/24566735 |
| Molecular-level functional magnetic resonance imaging of dopaminergic signaling. | Lee T, Cai LX, Lelyveld VS, Hai A, Jasanoff A | Science (New York, N.Y.) | 24786083 | Science | 2014 May 2 | https://www.ncbi.nlm.nih.gov/pubmed/24786083 |
| Wireless resonant circuits for the minimally invasive sensing of biophysical processes in magnetic resonance imaging. | Hai A, Spanoudaki VC, Bartelle BB, Jasanoff A | Nature biomedical engineering | 30932065 | Nat Biomed Eng | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30932065 |
| Molecular fMRI of Serotonin Transport. | Hai A, Cai LX, Lee T, Lelyveld VS, Jasanoff A | Neuron | 27773583 | Neuron | 2016 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/27773583 |
| Hybrid decoding of both spikes and low-frequency local field potentials for brain-machine interfaces. | Stavisky SD, Kao JC, Nuyujukian P, 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 | 25570632 | Annu Int Conf IEEE Eng Med Biol Soc | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25570632 |
| 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 |
| A Brain-Machine Interface Operating with a Real-Time Spiking Neural Network Control Algorithm. | Dethier J, Nuyujukian P, Eliasmith C, Stewart T, Elassaad SA, Shenoy KV, Boahen K | Advances in neural information processing systems | 25309106 | Adv Neural Inf Process Syst | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/25309106 |
| 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 |
| 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 |
| 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 |
| 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 |
| A High-Performance Neural Prosthesis Incorporating Discrete State Selection With Hidden Markov Models. | Kao JC, Nuyujukian P, Ryu SI, Shenoy KV | IEEE transactions on bio-medical engineering | 27337709 | IEEE Trans Biomed Eng | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27337709 |
| 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 |
| 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 |
| 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 |
| Leveraging historical knowledge of neural dynamics to rescue decoder performance as neural channels are lost: "Decoder hysteresis". | Kao JC, 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 | 26736448 | Annu Int Conf IEEE Eng Med Biol Soc | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26736448 |
| 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 |
| 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 |
| 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 |
| Studying brain organization via spontaneous fMRI signal. | Power JD, Schlaggar BL, Petersen SE | Neuron | 25459408 | Neuron | 2014 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/25459408 |
| 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 |
| 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 |
| 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 |
| High-fidelity musculoskeletal modeling reveals that motor planning variability contributes to the speed-accuracy tradeoff. | Al Borno M, Vyas S, Shenoy KV, Delp SL | eLife | 33325369 | Elife | 2020 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/33325369 |
| 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 |
| Selective modulation of cortical state during spatial attention. | Engel TA, Steinmetz NA, Gieselmann MA, Thiele A, Moore T, Boahen K | Science (New York, N.Y.) | 27934763 | Science | 2016 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/27934763 |
| 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 |
| 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 |
| 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 |
| 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 |
| Performance sustaining intracortical neural prostheses. | Nuyujukian P, Kao JC, Fan JM, Stavisky SD, Ryu SI, Shenoy KV | Journal of neural engineering | 25307561 | J Neural Eng | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25307561 |
| 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 |
| Structure and variability of delay activity in premotor cortex. | Even-Chen N, Sheffer B, Vyas S, Ryu SI, Shenoy KV | PLoS computational biology | 30794541 | PLoS Comput Biol | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30794541 |
| 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 |
| 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 |
| 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 |
| 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 |
| Speech-related dorsal motor cortex activity does not interfere with iBCI cursor control. | Stavisky SD, Willett FR, Avansino DT, Hochberg LR, Shenoy KV, Henderson JM | Journal of neural engineering | 32023225 | J Neural Eng | 2020 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/32023225 |
| 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 |
| 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 |
| Auto-deleting brain machine interface: Error detection using spiking neural activity in the motor cortex. | Even-Chen N, Stavisky SD, Kao JC, 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 | 26736203 | Annu Int Conf IEEE Eng Med Biol Soc | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26736203 |
| 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 |
| High-Throughput Mapping of Long-Range Neuronal Projection Using In Situ Sequencing. | Chen X, Sun YC, Zhan H, Kebschull JM, Fischer S, Matho K, Huang ZJ, Gillis J, Zador AM | Cell | 31626774 | Cell | 2019 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/31626774 |
| Sequencing the connectome. | Zador AM, Dubnau J, Oyibo HK, Zhan H, Cao G, Peikon ID | PLoS biology | 23109909 | PLoS Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23109909 |
| A New Defective Helper RNA to Produce Recombinant Sindbis Virus that Infects Neurons but does not Propagate. | Kebschull JM, Garcia da Silva P, Zador AM | Frontiers in neuroanatomy | 27252627 | Front Neuroanat | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27252627 |
| Assessing the replicability of spatial gene expression using atlas data from the adult mouse brain. | Lu S, Ortiz C, Fürth D, Fischer S, Meletis K, Zador A, Gillis J | PLoS biology | 34280183 | PLoS Biol | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34280183 |
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| High-throughput screen identifies cyclic nucleotide analogs that inhibit prostatic acid phosphatase. | McCoy ES, Lea WA, Mott BT, Maloney DJ, Jadhav A, Simeonov A, Zylka MJ | Journal of biomolecular screening | 23190738 | J Biomol Screen | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23190738 |
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| Tissue-nonspecific alkaline phosphatase acts redundantly with PAP and NT5E to generate adenosine in the dorsal spinal cord. | Street SE, Kramer NJ, Walsh PL, Taylor-Blake B, Yadav MC, King IF, Vihko P, Wightman RM, Millán JL, Zylka MJ | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23825434 | J Neurosci | 2013 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/23825434 |
| CGRPα-expressing sensory neurons respond to stimuli that evoke sensations of pain and itch. | McCoy ES, Taylor-Blake B, Zylka MJ | PloS one | 22563493 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22563493 |
| Prostatic acid phosphatase is required for the antinociceptive effects of thiamine and benfotiamine. | Hurt JK, Coleman JL, Fitzpatrick BJ, Taylor-Blake B, Bridges AS, Vihko P, Zylka MJ | PloS one | 23119057 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23119057 |
| PAP and NT5E inhibit nociceptive neurotransmission by rapidly hydrolyzing nucleotides to adenosine. | Street SE, Walsh PL, Sowa NA, Taylor-Blake B, Guillot TS, Vihko P, Wightman RM, Zylka MJ | Molecular pain | 22011440 | Mol Pain | 2011 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/22011440 |
| AMP is an adenosine A1 receptor agonist. | Rittiner JE, Korboukh I, Hull-Ryde EA, Jin J, Janzen WP, Frye SV, Zylka MJ | The Journal of biological chemistry | 22215671 | J Biol Chem | 2012 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/22215671 |
| Pain-relieving prospects for adenosine receptors and ectonucleotidases. | Zylka MJ | Trends in molecular medicine | 21236731 | Trends Mol Med | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21236731 |
| Targeting astrocyte signaling for chronic pain. | Gao YJ, Ji RR | Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeutics | 20880510 | Neurotherapeutics | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20880510 |
| Acute morphine activates satellite glial cells and up-regulates IL-1β in dorsal root ganglia in mice via matrix metalloprotease-9. | Berta T, Liu T, Liu YC, Xu ZZ, Ji RR | Molecular pain | 22439811 | Mol Pain | 2012 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/22439811 |
| Glia and pain: is chronic pain a gliopathy? | Ji RR, Berta T, Nedergaard M | Pain | 23792284 | Pain | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23792284 |
| Tissue plasminogen activator contributes to morphine tolerance and induces mechanical allodynia via astrocytic IL-1β and ERK signaling in the spinal cord of mice. | Berta T, Liu YC, Xu ZZ, Ji RR | Neuroscience | 23707980 | Neuroscience | 2013 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/23707980 |
| The c-Jun N-terminal kinase 1 (JNK1) in spinal astrocytes is required for the maintenance of bilateral mechanical allodynia under a persistent inflammatory pain condition. | Gao YJ, Xu ZZ, Liu YC, Wen YR, Decosterd I, Ji RR | Pain | 20022176 | Pain | 2010 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20022176 |
| Interferon alpha inhibits spinal cord synaptic and nociceptive transmission via neuronal-glial interactions. | Liu CC, Gao YJ, Luo H, Berta T, Xu ZZ, Ji RR, Tan PH | Scientific reports | 27670299 | Sci Rep | 2016 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/27670299 |
| Connexin-43 induces chemokine release from spinal cord astrocytes to maintain late-phase neuropathic pain in mice. | Chen G, Park CK, Xie RG, Berta T, Nedergaard M, Ji RR | Brain : a journal of neurology | 24919967 | Brain | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24919967 |
| A feed-forward spinal cord glycinergic neural circuit gates mechanical allodynia. | Lu Y, Dong H, Gao Y, Gong Y, Ren Y, Gu N, Zhou S, Xia N, Sun YY, Ji RR, Xiong L | The Journal of clinical investigation | 23979158 | J Clin Invest | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23979158 |
| Microglia and spinal cord synaptic plasticity in persistent pain. | Taves S, Berta T, Chen G, Ji RR | Neural plasticity | 24024042 | Neural Plast | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24024042 |
| Extracellular caspase-6 drives murine inflammatory pain via microglial TNF-α secretion. | Berta T, Park CK, Xu ZZ, Xie RG, Liu T, Lü N, Liu YC, Ji RR | The Journal of clinical investigation | 24531553 | J Clin Invest | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24531553 |
| β-arrestin-2 regulates NMDA receptor function in spinal lamina II neurons and duration of persistent pain. | Chen G, Xie RG, Gao YJ, Xu ZZ, Zhao LX, Bang S, Berta T, Park CK, Lay M, Chen W, Ji RR | Nature communications | 27538456 | Nat Commun | 2016 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/27538456 |
| Identification and signature profiles for pro-resolving and inflammatory lipid mediators in human tissue. | Colas RA, Shinohara M, Dalli J, Chiang N, Serhan CN | American journal of physiology. Cell physiology | 24696140 | Am J Physiol Cell Physiol | 2014 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/24696140 |
| Light touch induces ERK activation in superficial dorsal horn neurons after inflammation: involvement of spinal astrocytes and JNK signaling in touch-evoked central sensitization and mechanical allodynia. | Gao YJ, Ji RR | Journal of neurochemistry | 20722971 | J Neurochem | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20722971 |
| Spinal injection of TNF-α-activated astrocytes produces persistent pain symptom mechanical allodynia by releasing monocyte chemoattractant protein-1. | Gao YJ, Zhang L, Ji RR | Glia | 20737477 | Glia | 2010 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/20737477 |
| Targeting microglial purinergic signaling to improve morphine analgesia. | Ji RR | Pain | 20584568 | Pain | 2010 Sep | https://www.ncbi.nlm.nih.gov/pubmed/20584568 |
| Large A-fiber activity is required for microglial proliferation and p38 MAPK activation in the spinal cord: different effects of resiniferatoxin and bupivacaine on spinal microglial changes after spared nerve injury. | Suter MR, Berta T, Gao YJ, Decosterd I, Ji RR | Molecular pain | 19772627 | Mol Pain | 2009 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/19772627 |
| Glial cells and chronic pain. | Gosselin RD, Suter MR, Ji RR, Decosterd I | The Neuroscientist : a review journal bringing neurobiology, neurology and psychiatry | 20581331 | Neuroscientist | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20581331 |
| Oxidative stress induces itch via activation of transient receptor potential subtype ankyrin 1 in mice. | Liu T, Ji RR | Neuroscience bulletin | 22466125 | Neurosci Bull | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22466125 |
| Resolving TRPV1- and TNF-α-mediated spinal cord synaptic plasticity and inflammatory pain with neuroprotectin D1. | Park CK, Lü N, Xu ZZ, Liu T, Serhan CN, Ji RR | The Journal of neuroscience : the official journal of the Society for Neuroscience | 22016541 | J Neurosci | 2011 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/22016541 |
| Toll-like receptor 7 mediates pruritus. | Liu T, Xu ZZ, Park CK, Berta T, Ji RR | Nature neuroscience | 21037581 | Nat Neurosci | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21037581 |
| TNF-α contributes to spinal cord synaptic plasticity and inflammatory pain: distinct role of TNF receptor subtypes 1 and 2. | Zhang L, Berta T, Xu ZZ, Liu T, Park JY, Ji RR | Pain | 21159431 | Pain | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21159431 |
| Resolvins are potent analgesics for arthritic pain. | Xu ZZ, Ji RR | British journal of pharmacology | 21418190 | Br J Pharmacol | 2011 Sep | https://www.ncbi.nlm.nih.gov/pubmed/21418190 |
| A monoclonal antibody that targets a NaV1.7 channel voltage sensor for pain and itch relief. | Lee JH, Park CK, Chen G, Han Q, Xie RG, Liu T, Ji RR, Lee SY | Cell | 24856969 | Cell | 2014 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/24856969 |
| Vagus nerve controls resolution and pro-resolving mediators of inflammation. | Mirakaj V, Dalli J, Granja T, Rosenberger P, Serhan CN | The Journal of experimental medicine | 24863066 | J Exp Med | 2014 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/24863066 |
| Resolvin E1 inhibits neuropathic pain and spinal cord microglial activation following peripheral nerve injury. | Xu ZZ, Berta T, Ji RR | Journal of neuroimmune pharmacology : the official journal of the Society on NeuroImmune Pharmacology | 22878925 | J Neuroimmune Pharmacol | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22878925 |
| New insights into the mechanisms of itch: are pain and itch controlled by distinct mechanisms? | Liu T, Ji RR | Pflugers Archiv : European journal of physiology | 23636773 | Pflugers Arch | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23636773 |
| Chemokine contribution to neuropathic pain: respective induction of CXCL1 and CXCR2 in spinal cord astrocytes and neurons. | Zhang ZJ, Cao DL, Zhang X, Ji RR, Gao YJ | Pain | 23831863 | Pain | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23831863 |
| Emerging roles of resolvins in the resolution of inflammation and pain. | Ji RR, Xu ZZ, Strichartz G, Serhan CN | Trends in neurosciences | 21963090 | Trends Neurosci | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21963090 |
| Nociceptive neurons regulate innate and adaptive immunity and neuropathic pain through MyD88 adapter. | Liu XJ, Zhang Y, Liu T, Xu ZZ, Park CK, Berta T, Jiang D, Ji RR | Cell research | 25112711 | Cell Res | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25112711 |
| Extracellular microRNAs activate nociceptor neurons to elicit pain via TLR7 and TRPA1. | Park CK, Xu ZZ, Berta T, Han Q, Chen G, Liu XJ, Ji RR | Neuron | 24698267 | Neuron | 2014 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/24698267 |
| Development of a membrane-anchored chemerin receptor agonist as a novel modulator of allergic airway inflammation and neuropathic pain. | Doyle JR, Krishnaji ST, Zhu G, Xu ZZ, Heller D, Ji RR, Levy BD, Kumar K, Kopin AS | The Journal of biological chemistry | 24659779 | J Biol Chem | 2014 May 9 | https://www.ncbi.nlm.nih.gov/pubmed/24659779 |
| Emerging role of Toll-like receptors in the control of pain and itch. | Liu T, Gao YJ, Ji RR | Neuroscience bulletin | 22466124 | Neurosci Bull | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22466124 |
| Chemokines, neuronal-glial interactions, and central processing of neuropathic pain. | Gao YJ, Ji RR | Pharmacology & therapeutics | 20117131 | Pharmacol Ther | 2010 Apr | https://www.ncbi.nlm.nih.gov/pubmed/20117131 |
| Acute morphine induces matrix metalloproteinase-9 up-regulation in primary sensory neurons to mask opioid-induced analgesia in mice. | Liu YC, Berta T, Liu T, Tan PH, Ji RR | Molecular pain | 22444868 | Mol Pain | 2012 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/22444868 |
| Emerging targets in neuroinflammation-driven chronic pain. | Ji RR, Xu ZZ, Gao YJ | Nature reviews. Drug discovery | 24948120 | Nat Rev Drug Discov | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24948120 |
| Lipoxin A4 inhibits microglial activation and reduces neuroinflammation and neuropathic pain after spinal cord hemisection. | Martini AC, Berta T, Forner S, Chen G, Bento AF, Ji RR, Rae GA | Journal of neuroinflammation | 27059991 | J Neuroinflammation | 2016 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/27059991 |
| Microglial Signaling in Chronic Pain with a Special Focus on Caspase 6, p38 MAP Kinase, and Sex Dependence. | Berta T, Qadri YJ, Chen G, Ji RR | Journal of dental research | 27307048 | J Dent Res | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27307048 |
| Intrathecal bone marrow stromal cells inhibit neuropathic pain via TGF-β secretion. | Chen G, Park CK, Xie RG, Ji RR | The Journal of clinical investigation | 26168219 | J Clin Invest | 2015 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/26168219 |
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| Loss of NR1 subunit of NMDARs in primary sensory neurons leads to hyperexcitability and pain hypersensitivity: involvement of Ca(2+)-activated small conductance potassium channels. | Pagadala P, Park CK, Bang S, Xu ZZ, Xie RG, Liu T, Han BX, Tracey WD Jr, Wang F, Ji RR | The Journal of neuroscience : the official journal of the Society for Neuroscience | 23946399 | J Neurosci | 2013 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/23946399 |
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| Decoding functional metabolomics with docosahexaenoyl ethanolamide (DHEA) identifies novel bioactive signals. | Yang R, Fredman G, Krishnamoorthy S, Agrawal N, Irimia D, Piomelli D, Serhan CN | The Journal of biological chemistry | 21757729 | J Biol Chem | 2011 Sep 9 | https://www.ncbi.nlm.nih.gov/pubmed/21757729 |
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| Entrapment and social problem-solving in suicidal behavior across the adult lifespan. | Wang C, Keilp JG, Galfalvy H, Bridge JA, Sheftall AH, Szanto K | Journal of affective disorders | 36842650 | J Affect Disord | 2023 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/36842650 |
| Assessing the Validity of the Ask Suicide-Screening Questions in Black Youth. | Horowitz LM, Mournet AM, Sheftall A, He JP, Lowry NJ, Aguinaldo LD, Sullivant SA, Wharff EA, Merikangas KR, Pao M, Bridge JA | Journal of the Academy of Consultation-Liaison Psychiatry | 36273745 | J Acad Consult Liaison Psychiatry | 2023 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/36273745 |
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| Creating Patient-Specific Neural Cells for the In Vitro Study of Brain Disorders. | Brennand KJ, Marchetto MC, Benvenisty N, Brüstle O, Ebert A, Izpisua Belmonte JC, Kaykas A, Lancaster MA, Livesey FJ, McConnell MJ, McKay RD, Morrow EM, Muotri AR, Panchision DM, Rubin LL, Sawa A, Soldner F, Song H, Studer L, Temple S, Vaccarino FM, Wu J, Vanderhaeghen P, Gage FH, Jaenisch R | Stem cell reports | 26610635 | Stem Cell Reports | 2015 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/26610635 |
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| Generation of induced neuronal cells by the single reprogramming factor ASCL1. | Chanda S, Ang CE, Davila J, Pak C, Mall M, Lee QY, Ahlenius H, Jung SW, Südhof TC, Wernig M | Stem cell reports | 25254342 | Stem Cell Reports | 2014 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/25254342 |
| Pathogenic mechanism of an autism-associated neuroligin mutation involves altered AMPA-receptor trafficking. | Chanda S, Aoto J, Lee SJ, Wernig M, Südhof TC | Molecular psychiatry | 25778475 | Mol Psychiatry | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25778475 |
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| Generation of pure GABAergic neurons by transcription factor programming. | Yang N, Chanda S, Marro S, Ng YH, Janas JA, Haag D, Ang CE, Tang Y, Flores Q, Mall M, Wapinski O, Li M, Ahlenius H, Rubenstein JL, Chang HY, Buylla AA, Südhof TC, Wernig M | Nature methods | 28504679 | Nat Methods | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28504679 |
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| In Vivo Reprogramming for Brain and Spinal Cord Repair. | Chen G, Wernig M, Berninger B, Nakafuku M, Parmar M, Zhang CL | eNeuro | 26730402 | eNeuro | 2015 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/26730402 |
| FoxO3 regulates neuronal reprogramming of cells from postnatal and aging mice. | Ahlenius H, Chanda S, Webb AE, Yousif I, Karmazin J, Prusiner SB, Brunet A, Südhof TC, Wernig M | Proceedings of the National Academy of Sciences of the United States of America | 27402759 | Proc Natl Acad Sci U S A | 2016 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/27402759 |
| Neurons generated by direct conversion of fibroblasts reproduce synaptic phenotype caused by autism-associated neuroligin-3 mutation. | Chanda S, Marro S, Wernig M, Südhof TC | Proceedings of the National Academy of Sciences of the United States of America | 24046374 | Proc Natl Acad Sci U S A | 2013 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/24046374 |
| SPARCL1 Promotes Excitatory But Not Inhibitory Synapse Formation and Function Independent of Neurexins and Neuroligins. | Gan KJ, Südhof TC | The Journal of neuroscience : the official journal of the Society for Neuroscience | 32973045 | J Neurosci | 2020 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/32973045 |
| Neuroligin-3 confines AMPA receptors into nanoclusters, thereby controlling synaptic strength at the calyx of Held synapses. | Han Y, Cao R, Qin L, Chen LY, Tang AH, Südhof TC, Zhang B | Science advances | 35704570 | Sci Adv | 2022 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/35704570 |
| Molecular self-avoidance in synaptic neurexin complexes. | Wang CY, Trotter JH, Liakath-Ali K, Lee SJ, Liu X, Südhof TC | Science advances | 34919427 | Sci Adv | 2021 Dec 17 | https://www.ncbi.nlm.nih.gov/pubmed/34919427 |
| Induction of synapse formation by de novo neurotransmitter synthesis. | Burlingham SR, Wong NF, Peterkin L, Lubow L, Dos Santos Passos C, Benner O, Ghebrial M, Cast TP, Xu-Friedman MA, Südhof TC, Chanda S | Nature communications | 35650274 | Nat Commun | 2022 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/35650274 |
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| Astrocytic Neuroligin-3 influences gene expression and social behavior, but is dispensable for synapse number. | Qin L, Liu Z, Guo S, Han Y, Wang X, Ren W, Chen J, Zhen H, Nie C, Xing KK, Chen T, Südhof TC, Sun Y, Zhang B | Molecular psychiatry | 39003414 | Mol Psychiatry | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39003414 |
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| Generation of oligodendroglial cells by direct lineage conversion. | Yang N, Zuchero JB, Ahlenius H, Marro S, Ng YH, Vierbuchen T, Hawkins JS, Geissler R, Barres BA, Wernig M | Nature biotechnology | 23584610 | Nat Biotechnol | 2013 May | https://www.ncbi.nlm.nih.gov/pubmed/23584610 |
| Cerebellins are differentially expressed in selective subsets of neurons throughout the brain. | Seigneur E, Südhof TC | The Journal of comparative neurology | 28714144 | J Comp Neurol | 2017 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/28714144 |
| Transdifferentiation of human adult peripheral blood T cells into neurons. | Tanabe K, Ang CE, Chanda S, Olmos VH, Haag D, Levinson DF, Südhof TC, Wernig M | Proceedings of the National Academy of Sciences of the United States of America | 29866841 | Proc Natl Acad Sci U S A | 2018 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/29866841 |
| Direct Reprogramming of Human Neurons Identifies MARCKSL1 as a Pathogenic Mediator of Valproic Acid-Induced Teratogenicity. | Chanda S, Ang CE, Lee QY, Ghebrial M, Haag D, Shibuya Y, Wernig M, Südhof TC | Cell stem cell | 31155484 | Cell Stem Cell | 2019 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/31155484 |
| Specific factors in blood from young but not old mice directly promote synapse formation and NMDA-receptor recruitment. | Gan KJ, Südhof TC | Proceedings of the National Academy of Sciences of the United States of America | 31160442 | Proc Natl Acad Sci U S A | 2019 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/31160442 |
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| FOXO3 shares common targets with ASCL1 genome-wide and inhibits ASCL1-dependent neurogenesis. | Webb AE, Pollina EA, Vierbuchen T, Urbán N, Ucar D, Leeman DS, Martynoga B, Sewak M, Rando TA, Guillemot F, Wernig M, Brunet A | Cell reports | 23891001 | Cell Rep | 2013 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/23891001 |
| Human Neuropsychiatric Disease Modeling using Conditional Deletion Reveals Synaptic Transmission Defects Caused by Heterozygous Mutations in NRXN1. | Pak C, Danko T, Zhang Y, Aoto J, Anderson G, Maxeiner S, Yi F, Wernig M, Südhof TC | Cell stem cell | 26279266 | Cell Stem Cell | 2015 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/26279266 |
| Neuroligin-4 Regulates Excitatory Synaptic Transmission in Human Neurons. | Marro SG, Chanda S, Yang N, Janas JA, Valperga G, Trotter J, Zhou B, Merrill S, Yousif I, Shelby H, Vogel H, Kalani MYS, Südhof TC, Wernig M | Neuron | 31257103 | Neuron | 2019 Aug 21 | https://www.ncbi.nlm.nih.gov/pubmed/31257103 |
| Neuroligin-1 Signaling Controls LTP and NMDA Receptors by Distinct Molecular Pathways. | Wu X, Morishita WK, Riley AM, Hale WD, Südhof TC, Malenka RC | Neuron | 30871858 | Neuron | 2019 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/30871858 |
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| Direct lineage conversion of terminally differentiated hepatocytes to functional neurons. | Marro S, Pang ZP, Yang N, Tsai MC, Qu K, Chang HY, Südhof TC, Wernig M | Cell stem cell | 21962918 | Cell Stem Cell | 2011 Oct 4 | https://www.ncbi.nlm.nih.gov/pubmed/21962918 |
| Induction of human neuronal cells by defined transcription factors. | Pang ZP, Yang N, Vierbuchen T, Ostermeier A, Fuentes DR, Yang TQ, Citri A, Sebastiano V, Marro S, Südhof TC, Wernig M | Nature | 21617644 | Nature | 2011 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/21617644 |
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| Autism-associated neuroligin-4 mutation selectively impairs glycinergic synaptic transmission in mouse brainstem synapses. | Zhang B, Gokce O, Hale WD, Brose N, Südhof TC | The Journal of experimental medicine | 29724786 | J Exp Med | 2018 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/29724786 |
| Retinoic Acid Receptor RARα-Dependent Synaptic Signaling Mediates Homeostatic Synaptic Plasticity at the Inhibitory Synapses of Mouse Visual Cortex. | Zhong LR, Chen X, Park E, Südhof TC, Chen L | The Journal of neuroscience : the official journal of the Society for Neuroscience | 30355624 | J Neurosci | 2018 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/30355624 |
| Evolution of the Autism-Associated Neuroligin-4 Gene Reveals Broad Erosion of Pseudoautosomal Regions in Rodents. | Maxeiner S, Benseler F, Krasteva-Christ G, Brose N, Südhof TC | Molecular biology and evolution | 32011705 | Mol Biol Evol | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/32011705 |
| The fragile X mutation impairs homeostatic plasticity in human neurons by blocking synaptic retinoic acid signaling. | Zhang Z, Marro SG, Zhang Y, Arendt KL, Patzke C, Zhou B, Fair T, Yang N, Südhof TC, Wernig M, Chen L | Science translational medicine | 30068571 | Sci Transl Med | 2018 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/30068571 |
| Efficient generation of dopaminergic induced neuronal cells with midbrain characteristics. | Ng YH, Chanda S, Janas JA, Yang N, Kokubu Y, Südhof TC, Wernig M | Stem cell reports | 34171286 | Stem Cell Reports | 2021 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/34171286 |
| Analyses of the autism-associated neuroligin-3 R451C mutation in human neurons reveal a gain-of-function synaptic mechanism. | Wang L, Mirabella VR, Dai R, Su X, Xu R, Jadali A, Bernabucci M, Singh I, Chen Y, Tian J, Jiang P, Kwan KY, Pak C, Liu C, Comoletti D, Hart RP, Chen C, Südhof TC, Pang ZP | Molecular psychiatry | 36280753 | Mol Psychiatry | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/36280753 |
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| Rapid single-step induction of functional neurons from human pluripotent stem cells. | Zhang Y, Pak C, Han Y, Ahlenius H, Zhang Z, Chanda S, Marro S, Patzke C, Acuna C, Covy J, Xu W, Yang N, Danko T, Chen L, Wernig M, Südhof TC | Neuron | 23764284 | Neuron | 2013 Jun 5 | https://www.ncbi.nlm.nih.gov/pubmed/23764284 |
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| Unique versus Redundant Functions of Neuroligin Genes in Shaping Excitatory and Inhibitory Synapse Properties. | Chanda S, Hale WD, Zhang B, Wernig M, Südhof TC | The Journal of neuroscience : the official journal of the Society for Neuroscience | 28607166 | J Neurosci | 2017 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/28607166 |
| Neuromodulator Signaling Bidirectionally Controls Vesicle Numbers in Human Synapses. | Patzke C, Brockmann MM, Dai J, Gan KJ, Grauel MK, Fenske P, Liu Y, Acuna C, Rosenmund C, Südhof TC | Cell | 31585084 | Cell | 2019 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/31585084 |
| Multiple signaling pathways are essential for synapse formation induced by synaptic adhesion molecules. | Jiang X, Sando R, Südhof TC | Proceedings of the National Academy of Sciences of the United States of America | 33431662 | Proc Natl Acad Sci U S A | 2021 Jan 19 | https://www.ncbi.nlm.nih.gov/pubmed/33431662 |
| Direct lineage conversions: unnatural but useful? | Vierbuchen T, Wernig M | Nature biotechnology | 21997635 | Nat Biotechnol | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21997635 |
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| Conditional deletion of L1CAM in human neurons impairs both axonal and dendritic arborization and action potential generation. | Patzke C, Acuna C, Giam LR, Wernig M, Südhof TC | The Journal of experimental medicine | 27001749 | J Exp Med | 2016 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/27001749 |
| Autism-associated SHANK3 haploinsufficiency causes Ih channelopathy in human neurons. | Yi F, Danko T, Botelho SC, Patzke C, Pak C, Wernig M, Südhof TC | Science (New York, N.Y.) | 26966193 | Science | 2016 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/26966193 |
| Efficient generation of functional neurons from mouse embryonic stem cells via neurogenin-2 expression. | Liu Y, Wang J, Südhof TC, Wernig M | Nature protocols | 37596357 | Nat Protoc | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37596357 |
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| High-Throughput Method of Whole-Brain Sectioning, Using the Tape-Transfer Technique. | Pinskiy V, Jones J, Tolpygo AS, Franciotti N, Weber K, Mitra PP | PloS one | 26181725 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26181725 |
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| A low-cost technique to cryo-protect and freeze rodent brains, precisely aligned to stereotaxic coordinates for whole-brain cryosectioning. | Pinskiy V, Tolpygo AS, Jones J, Weber K, Franciotti N, Mitra PP | Journal of neuroscience methods | 23541995 | J Neurosci Methods | 2013 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/23541995 |
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| NPAS1 represses the generation of specific subtypes of cortical interneurons. | Stanco A, Pla R, Vogt D, Chen Y, Mandal S, Walker J, Hunt RF, Lindtner S, Erdman CA, Pieper AA, Hamilton SP, Xu D, Baraban SC, Rubenstein JL | Neuron | 25467980 | Neuron | 2014 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/25467980 |
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| Discovery of a neuroprotective chemical, (S)-N-(3-(3,6-dibromo-9H-carbazol-9-yl)-2-fluoropropyl)-6-methoxypyridin-2-amine [(-)-P7C3-S243], with improved druglike properties. | Naidoo J, De Jesus-Cortes H, Huntington P, Estill S, Morlock LK, Starwalt R, Mangano TJ, Williams NS, Pieper AA, Ready JM | Journal of medicinal chemistry | 24697290 | J Med Chem | 2014 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/24697290 |
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| Neuroprotective efficacy of aminopropyl carbazoles in a mouse model of Parkinson disease. | De Jesús-Cortés H, Xu P, Drawbridge J, Estill SJ, Huntington P, Tran S, Britt J, Tesla R, Morlock L, Naidoo J, Melito LM, Wang G, Williams NS, Ready JM, McKnight SL, Pieper AA | Proceedings of the National Academy of Sciences of the United States of America | 23027934 | Proc Natl Acad Sci U S A | 2012 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/23027934 |
| Development of proneurogenic, neuroprotective small molecules. | MacMillan KS, Naidoo J, Liang J, Melito L, Williams NS, Morlock L, Huntington PJ, Estill SJ, Longgood J, Becker GL, McKnight SL, Pieper AA, De Brabander JK, Ready JM | Journal of the American Chemical Society | 21210688 | J Am Chem Soc | 2011 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/21210688 |
| Pharmacologic rescue of motor and sensory function by the neuroprotective compound P7C3 following neonatal nerve injury. | Kemp SWP, Szynkaruk M, Stanoulis KN, Wood MD, Liu EH, Willand MP, Morlock L, Naidoo J, Williams NS, Ready JM, Mangano TJ, Beggs S, Salter MW, Gordon T, Pieper AA, Borschel GH | Neuroscience | 25313000 | Neuroscience | 2015 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/25313000 |
| Population-enriched innate immune variants may identify candidate gene targets at the intersection of cancer and cardio-metabolic disease. | Yeyeodu S, Hanafi D, Webb K, Laurie NA, Kimbro KS | Frontiers in endocrinology | 38577257 | Front Endocrinol (Lausanne) | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/38577257 |
| Applying a Gene Reversal Rate Computational Methodology to Identify Drugs for a Rare Cancer: Inflammatory Breast Cancer. | Ji X, Williams KP, Zheng W | Cancer informatics | 37846218 | Cancer Inform | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37846218 |
| Geospatial Associations between Female Breast Cancer Mortality Rates and Environmental Socioeconomic Indicators for North Carolina. | Burwell A, Kimbro S, Mulrooney T | International journal of environmental research and public health | 37510605 | Int J Environ Res Public Health | 2023 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/37510605 |
| Identification of small molecule antagonists of sonic hedgehog/heparin binding with activity in hedgehog functional assays. | Lamson DR, Tarpley M, Addo K, Ji X, Abu Rabe D, Ehe B, Hughes M, Smith GR, Daye LR, Musso DL, Zheng W, Williams KP | Biochimica et biophysica acta. General subjects | 39151833 | Biochim Biophys Acta Gen Subj | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39151833 |
| Identification of Novel GANT61 Analogs with Activity in Hedgehog Functional Assays and GLI1-Dependent Cancer Cells. | Abu Rabe D, Chdid L, Lamson DR, Laudeman CP, Tarpley M, Elsayed N, Smith GR, Zheng W, Dixon MS, Williams KP | Molecules (Basel, Switzerland) | 38999049 | Molecules | 2024 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/38999049 |
| Interventions Across the Translational Research Spectrum: Addressing Disparities Among Racial and Ethnic Minoritized Youth with Type 1 Diabetes. | Ellis DA, Naar S | Endocrinology and metabolism clinics of North America | 37865475 | Endocrinol Metab Clin North Am | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37865475 |
| Study protocol for transforming health equity research in integrated primary care: Antiracism as a disruptive innovation. | Naar S, Pettus C, Anderson N, Pooler-Burgess M, Ralston P, Flynn H, Combs T, Baquet C, Schatschneider C, Luke D | PloS one | 38935743 | PLoS One | 2024 | https://www.ncbi.nlm.nih.gov/pubmed/38935743 |
| Accommodating Serial Correlation and Sequential Design Elements in Personalized Studies and Aggregated Personalized Studies. | Schork NJ | Harvard data science review | 37032736 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/37032736 |
| An R Shiny App for a Chronic Lower Back Pain Study, Personalized N-of-1 Trial. | Chandereng T | Harvard data science review | 37091071 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/37091071 |
| Are Nomothetic or Ideographic Approaches Superior in Predicting Daily Exercise Behaviors? | Cheung YK, Hsueh PS, Qian M, Yoon S, Meli L, Diaz KM, Schwartz JE, Kronish IM, Davidson KW | Methods of information in medicine | 29582914 | Methods Inf Med | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29582914 |
| Patients and primary care providers identify opportunities for personalized (N-of-1) trials in the mobile health era. | Kronish IM, Alcántara C, Duer-Hefele J, St Onge T, Davidson KW, Carter EJ, Medina V, Cohn E, Moise N | Journal of clinical epidemiology | 28648833 | J Clin Epidemiol | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28648833 |
| N-of-1 Randomized Intervention Trials in Health Psychology: A Systematic Review and Methodology Critique. | Shaffer JA, Kronish IM, Falzon L, Cheung YK, Davidson KW | Annals of behavioral medicine : a publication of the Society of Behavioral Medicine | 30124759 | Ann Behav Med | 2018 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/30124759 |
| A Series of Virtual Interventions for Chronic Lower Back Pain: A Feasibility Pilot Study for a Series of Personalized (N-of-1) Trials. | Butler M, D'Angelo S, Kaplan M, Tashnim Z, Miller D, Ahn H, Falzon L, Dominello AJ, Foroughi C, Chandereng T, Cheung K, Davidson K | Harvard data science review | 37609556 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/37609556 |
| Rapid Emergence of SARS-CoV-2 in the Greater New York Metropolitan Area: Geolocation, Demographics, Positivity Rates, and Hospitalization for 46 793 Persons Tested by Northwell Health. | Reichberg SB, Mitra PP, Haghamad A, Ramrattan G, Crawford JM, Northwell COVID-19 Research Consortium, Berry GJ, Davidson KW, Drach A, Duong S, Juretschko S, Maria NI, Yang Y, Ziemba YC | Clinical infectious diseases : an official publication of the Infectious Diseases Society of America | 32640030 | Clin Infect Dis | 2020 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/32640030 |
| Usefulness of Elevated Troponin to Predict Death in Patients With COVID-19 and Myocardial Injury. | Majure DT, Gruberg L, Saba SG, Kvasnovsky C, Hirsch JS, Jauhar R, Northwell Health COVID-19 Research Consortium | The American journal of cardiology | 33058800 | Am J Cardiol | 2021 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/33058800 |
| BMI as a Risk Factor for Clinical Outcomes in Patients Hospitalized with COVID-19 in New York. | Kim TS, Roslin M, Wang JJ, Kane J, Hirsch JS, Kim EJ, Northwell Health COVID-19 Research Consortium | Obesity (Silver Spring, Md.) | 33128848 | Obesity (Silver Spring) | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33128848 |
| An early experience on the effect of solid organ transplant status on hospitalized COVID-19 patients. | Nair V, Jandovitz N, Hirsch JS, Abate M, Satapathy SK, Roth N, Miyara SJ, Guevara S, Kressel AM, Xiang A, Wu G, Butensky SD, Lin D, Williams S, Bhaskaran MC, Majure DT, Grodstein E, Lau L, Nair G, Fahmy AE, Winnick A, Breslin N, Berlinrut I, Molmenti C, Becker LB, Malhotra P, Gautam-Goyal P, Lima B, Maybaum S, Shah SK, Takegawa R, Hayashida K, Shinozaki K, Teperman LW, Molmenti EP, Northwell Health COVID-19 Research Consortium | American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons | 33443778 | Am J Transplant | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/33443778 |
| Intersectional Identity and Racial Inequality During the COVID-19 Pandemic: Perspectives of Black Physician Mothers. | Louisias M, Marrast L | Journal of women's health (2002) | 32762601 | J Womens Health (Larchmt) | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32762601 |
| Evaluating Personalized (N-of-1) Trials in Rare Diseases: How Much Experimentation Is Enough? | Cheung K, Mitsumoto H | Harvard data science review | 38283317 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38283317 |
| Patient preferences for personalized (N-of-1) trials: a conjoint analysis. | Moise N, Wood D, Cheung YKK, Duan N, Onge TS, Duer-Hefele J, Pu T, Davidson KW, Kronish IM, Members of the “Personalized Trial Collaboratory” | Journal of clinical epidemiology | 29859242 | J Clin Epidemiol | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/29859242 |
| Machine learning to assist clinical decision-making during the COVID-19 pandemic. | Debnath S, Barnaby DP, Coppa K, Makhnevich A, Kim EJ, Chatterjee S, Tóth V, Levy TJ, Paradis MD, Cohen SL, Hirsch JS, Zanos TP, Northwell COVID-19 Research Consortium | Bioelectronic medicine | 32665967 | Bioelectron Med | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32665967 |
| Increasing the Precision of Hypertension Treatment Through Personalized Trials: a Pilot Study. | Kronish IM, Cheung YK, Shimbo D, Julian J, Gallagher B, Parsons F, Davidson KW | Journal of general internal medicine | 30859504 | J Gen Intern Med | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30859504 |
| Significance of Multiple Adverse Social Determinants of Health on the Diagnosis, Control, and Management of Diabetes. | Kim EJ, Abrahams S, Marrast L, Martinez J, Hanchate AD, Conigliaro J | Journal of general internal medicine | 32495092 | J Gen Intern Med | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32495092 |
| Experimental Designs to Optimize Treatments for Individuals: Personalized N-of-1 Trials. | Davidson KW, Silverstein M, Cheung K, Paluch RA, Epstein LH | JAMA pediatrics | 33587109 | JAMA Pediatr | 2021 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/33587109 |
| Racial and ethnic minority patient participation in N-of-1 trials: perspectives of healthcare providers and patients. | Marrast L, Conigliaro J, Chan C, Kim EJ, Duer-Hefele J, Diefenbach MA, Davidson KW | Personalized medicine | 34047197 | Per Med | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34047197 |
| Estimating the predictive value of negative severe acute respiratory coronavirus virus 2 (SARS-CoV-2) results: A prospective study. | Hirschwerk D, Foley M, Lesser M, Farber B, Crawford JM, Davidson KW, Berry GJ, Smith E, Kast C, Volel V, McGinn T | Infection control and hospital epidemiology | 33298203 | Infect Control Hosp Epidemiol | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/33298203 |
| Intubated COVID-19 predictive (ICOP) score for early mortality after intubation in patients with COVID-19. | Nishikimi M, Rasul R, Sison CP, Jafari D, Shoaib M, Shinozaki K, Li T, Hayashida K, Rolston DM, Hirsch JS, Becker LB, Northwell Health COVID-19 Research Consortium | Scientific reports | 34702896 | Sci Rep | 2021 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/34702896 |
| Impact of Timing of Tocilizumab Use in Hospitalized Patients With SARS-CoV-2 Infection. | Singh AK, Oks M, Husk G, Dechario SP, Mina B, Singh K, Kirschenbaum L, Carpati CM, Mahmoud O, Gabra NI, Ishikawa O, Altschultz E, Shah V, Mahajan A, Gautam A, Birnbaum B, Antonacci AC, Raoof S | Respiratory care | 34548407 | Respir Care | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34548407 |
| Barriers to the Use of Clinical Decision Support for the Evaluation of Pulmonary Embolism: Qualitative Interview Study. | Richardson S, Dauber-Decker KL, McGinn T, Barnaby DP, Cattamanchi A, Pekmezaris R | JMIR human factors | 34346901 | JMIR Hum Factors | 2021 Aug 4 | https://www.ncbi.nlm.nih.gov/pubmed/34346901 |
| Now is the time to assess the effects of open science practiceswith randomized control trials. | Suls J, Rothman AJ, Davidson KW | The American psychologist | 34807632 | Am Psychol | 2022 Apr | https://www.ncbi.nlm.nih.gov/pubmed/34807632 |
| Clinical Mortality in a Large COVID-19 Cohort: Observational Study. | Jarrett M, Schultz S, Lyall J, Wang J, Stier L, De Geronimo M, Nelson K | Journal of medical Internet research | 32930099 | J Med Internet Res | 2020 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/32930099 |
| A Machine Learning Prediction Model of Respiratory Failure Within 48 Hours of Patient Admission for COVID-19: Model Development and Validation. | Bolourani S, Brenner M, Wang P, McGinn T, Hirsch JS, Barnaby D, Zanos TP, Northwell COVID-19 Research Consortium | Journal of medical Internet research | 33476281 | J Med Internet Res | 2021 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/33476281 |
| Clinical Usefulness of Bright White Light Therapy for Depressive Symptoms in Cancer Survivors: Results from a Series of Personalized (N-of-1) Trials. | Kronish IM, Cheung YK, Julian J, Parsons F, Lee J, Yoon S, Valdimarsdottir H, Green P, Suls J, Hershman DL, Davidson KW | Healthcare (Basel, Switzerland) | 31905890 | Healthcare (Basel) | 2019 Dec 30 | https://www.ncbi.nlm.nih.gov/pubmed/31905890 |
| Mortality of Mechanically Ventilated COVID-19 Patients in Traditional versus Expanded Intensive Care Units in New York. | Nishikimi M, Jafari D, Singh N, Shinozaki K, Sison CP, Shoaib M, Gong J, Rasul R, Li T, Hayashida K, Rolston DM, Miyara SJ, Hirsch JS, Gandomi A, White MT, Jarrett MP, Lesser ML, Becker LB, Northwell Health COVID-19 Research Consortium | Annals of the American Thoracic Society | 35213292 | Ann Am Thorac Soc | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35213292 |
| Association of race/ethnicity with mortality in patients hospitalized with COVID-19. | Richardson S, Martinez J, Hirsch JS, Cerise J, Lesser M, Roswell RO, Davidson KW, Northwell Health COVID-19 Research Consortium | PloS one | 35925973 | PLoS One | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/35925973 |
| Envisioning a future for precision health psychology: innovative applied statistical approaches to N-of-1 studies. | Davidson KW, Cheung YK | Health psychology review | 28651455 | Health Psychol Rev | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28651455 |
| Introducing Data Sciences to N-of-1 Designs, Statistics, Use-Cases, the Future, and the Moniker 'N-of-1' Trial. | Davidson KW, Cheung YK, Friel CP, Suls J | Harvard data science review | 38009132 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38009132 |
| Protocol for randomized personalized trial for stress management compared to standard of care. | Goodwin AM, Miller D, D'Angelo S, Perrin A, Wiener R, Greene B, Romain AN, Arader L, Chandereng T, Kuen Cheung Y, Davidson KW, Butler M | Frontiers in psychology | 37794909 | Front Psychol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/37794909 |
| The Family of Single-Case Experimental Designs. | Epstein LH, Dallery J | Harvard data science review | 36926648 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36926648 |
| Examination of patient characteristics and hydroxychloroquine use based on the US Food and Drug Administration's recommendation: a cross-sectional analysis in New York. | Kim EJ, Coppa K, Hirsch JS, Abrahams S, Johnson J, Lesser M, Davidson KW, Conigliaro J, Northwell Health COVID-19 Research Consortium, Northwell Health COVID-19 Research Consortium | BMJ open | 33558355 | BMJ Open | 2021 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/33558355 |
| Prevalence and Predictors of Venous Thromboembolism or Mortality in Hospitalized COVID-19 Patients. | Cohen SL, Gianos E, Barish MA, Chatterjee S, Kohn N, Lesser M, Giannis D, Coppa K, Hirsch JS, McGinn TG, Goldin ME, Spyropoulos AC, Northwell Health COVID-19 Research Consortium | Thrombosis and haemostasis | 33472255 | Thromb Haemost | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/33472255 |
| Sex-Based Differences in COVID-19 Outcomes. | Tejpal A, Gianos E, Cerise J, Hirsch JS, Rosen S, Kohn N, Lesser M, Weinberg C, Majure D, Satapathy SK, Bernstein D, Barish MA, Spyropoulos AC, Brown RM | Journal of women's health (2002) | 33885345 | J Womens Health (Larchmt) | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33885345 |
| Risk factors and outcomes for acute-on-chronic liver failure in COVID-19: a large multi-center observational cohort study. | Satapathy SK, Roth NC, Kvasnovsky C, Hirsch JS, Trindade AJ, Molmenti E, Barish M, Hirschwerk D, Da BL, Bernstein D, Northwell Health COVID-19 Research Consortium | Hepatology international | 33826042 | Hepatol Int | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33826042 |
| Let Sleeping Patients Lie, avoiding unnecessary overnight vitals monitoring using a clinically based deep-learning model. | Tóth V, Meytlis M, Barnaby DP, Bock KR, Oppenheim MI, Al-Abed Y, McGinn T, Davidson KW, Becker LB, Hirsch JS, Zanos TP | NPJ digital medicine | 33299116 | NPJ Digit Med | 2020 Nov 13 | https://www.ncbi.nlm.nih.gov/pubmed/33299116 |
| Early Experience of COVID-19 in a US Children's Hospital. | Kainth MK, Goenka PK, Williamson KA, Fishbein JS, Subramony A, Barone S, Belfer JA, Feld LM, Krief WI, Palumbo N, Rajan S, Rocker J, Scotto T, Sharma S, Sokoloff WC, Schleien C, Rubin LG, NORTHWELL HEALTH COVID-19 RESEARCH CONSORTIUM | Pediatrics | 32680880 | Pediatrics | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32680880 |
| COVID-19 in kidney transplant recipients. | Nair V, Jandovitz N, Hirsch JS, Nair G, Abate M, Bhaskaran M, Grodstein E, Berlinrut I, Hirschwerk D, Cohen SL, Davidson KW, Dominello AJ, Osorio GA, Richardson S, Teperman LW, Molmenti EP | American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons | 32351040 | Am J Transplant | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32351040 |
| Characteristics, Cardiac Involvement, and Outcomes of Multisystem Inflammatory Syndrome of Childhood Associated with severe acute respiratory syndrome coronavirus 2 Infection. | Capone CA, Subramony A, Sweberg T, Schneider J, Shah S, Rubin L, Schleien C, Northwell Health COVID-19 Research Consortium, Epstein S, Johnson JC, Kessel A, Misra N, Mitchell E, Palumbo N, Rajan S, Rocker J, Williamson K, Davidson KW | The Journal of pediatrics | 32553873 | J Pediatr | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32553873 |
| Personalized (N-of-1) Trials for Depression: A Systematic Review. | Kronish IM, Hampsey M, Falzon L, Konrad B, Davidson KW | Journal of clinical psychopharmacology | 29596148 | J Clin Psychopharmacol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29596148 |
| N-of-1 Trials, Their Reporting Guidelines, and the Advancement of Open Science Principles. | Porcino A, Vohra S | Harvard data science review | 38031562 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38031562 |
| Expanding Knowledge and Changing Attitudes About Poverty: An Interactive, Interprofessional Approach. | Marrast LM, Chim C, Tocco J, Coletti DJ, Nouryan C, Block L, Martinez J | Journal of primary care & community health | 35225052 | J Prim Care Community Health | 2022 Jan-Dec | https://www.ncbi.nlm.nih.gov/pubmed/35225052 |
| In-Hospital 30-Day Survival Among Young Adults With Coronavirus Disease 2019: A Cohort Study. | Richardson S, Gitlin J, Kozel Z, Levy S, Rahman H, Hirsch JS, McGinn T, Diefenbach MA | Open forum infectious diseases | 34183983 | Open Forum Infect Dis | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/34183983 |
| Series of virtual light therapy interventions for fatigue: a feasibility pilot study protocol for a series of personalised (N-of-1) trials. | Butler M, D'Angelo S, Lewis C, Miller D, Perrin A, Suls J, Chandereng T, Cheung YK, Davidson KW | BMJ open | 36283748 | BMJ Open | 2022 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/36283748 |
| Why Do I Get Side Effects? Personalized (N-of-1) Trials for Statin Intolerance and the Nocebo Effect. | Howard JP, Wood FA, Francis DP | Harvard data science review | 38344133 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38344133 |
| Using Metabolic Testing to Personalize Behavioral Obesity Treatment. | Epstein LH, Apolzan JW, Moore M, Neuwald NV, Faith MS | Obesity science & practice | 40070464 | Obes Sci Pract | 2025 Apr | https://www.ncbi.nlm.nih.gov/pubmed/40070464 |
| Effectiveness of interventions targeting self-regulation to improve adherence to chronic disease medications: a meta-review of meta-analyses. | Wilson TE, Hennessy EA, Falzon L, Boyd R, Kronish IM, Birk JL | Health psychology review | 31856664 | Health Psychol Rev | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31856664 |
| Selected psychological comorbidities in coronary heart disease: Challenges and grand opportunities. | Davidson KW, Alcántara C, Miller GE | The American psychologist | 30394780 | Am Psychol | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30394780 |
| Barriers to and Facilitators for Acceptance of Comprehensive Clinical Decision Support System-Driven Care Maps for Patients With Thoracic Trauma: Interview Study Among Health Care Providers and Nurses. | Jones EK, Banks A, Melton GB, Porta CM, Tignanelli CJ | JMIR human factors | 35293873 | JMIR Hum Factors | 2022 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/35293873 |
| Accomplishing breakthroughs in behavioural medicine research. | Davidson KW, Bacon SL, Bennett GG, Brondolo E, Czajkowski SM, Diefenbach MA, Epel ES, Matthews K, Revenson TA, Ruiz JM, Segerstrom SC, Behavioral Medicine Research Council | Nature human behaviour | 34127817 | Nat Hum Behav | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34127817 |
| Effectiveness of SARS-CoV-2 Decontamination and Containment in a COVID-19 ICU. | Brune Z, Kuschner CE, Mootz J, Davidson KW, Pena RCF, Ghanem MH, Fischer A, Gitman M, Teperman L, Mason C, Becker LB | International journal of environmental research and public health | 33802332 | Int J Environ Res Public Health | 2021 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/33802332 |
| Prevalence of SARS-CoV-2 Antibodies in Health Care Personnel in the New York City Area. | Moscola J, Sembajwe G, Jarrett M, Farber B, Chang T, McGinn T, Davidson KW, Northwell Health COVID-19 Research Consortium | JAMA | 32780804 | JAMA | 2020 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/32780804 |
| Single case designs for early phase behavioral translational research in health psychology. | Epstein LH, Bickel WK, Czajkowski SM, Paluch RA, Moeyaert M, Davidson KW | Health psychology : official journal of the Division of Health Psychology, American Psychological Association | 34370494 | Health Psychol | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34370494 |
| Using Behavioral Analytics to Increase Exercise: A Randomized N-of-1 Study. | Yoon S, Schwartz JE, Burg MM, Kronish IM, Alcantara C, Julian J, Parsons F, Davidson KW, Diaz KM | American journal of preventive medicine | 29429607 | Am J Prev Med | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29429607 |
| A look at the increasing demographic representation within behavioral medicine. | Yoon S, Falzon L, Anderson NB, Davidson KW | Journal of behavioral medicine | 30825089 | J Behav Med | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30825089 |
| Presenting Characteristics, Comorbidities, and Outcomes Among 5700 Patients Hospitalized With COVID-19 in the New York City Area. | Richardson S, Hirsch JS, Narasimhan M, Crawford JM, McGinn T, Davidson KW, the Northwell COVID-19 Research Consortium, Barnaby DP, Becker LB, Chelico JD, Cohen SL, Cookingham J, Coppa K, Diefenbach MA, Dominello AJ, Duer-Hefele J, Falzon L, Gitlin J, Hajizadeh N, Harvin TG, Hirschwerk DA, Kim EJ, Kozel ZM, Marrast LM, Mogavero JN, Osorio GA, Qiu M, Zanos TP | JAMA | 32320003 | JAMA | 2020 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/32320003 |
| Conduct and Implementation of Personalized Trials in Research and Practice. | Kravitz RL, Duan N | Harvard data science review | 38009129 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38009129 |
| Personalized Data Science and Personalized (N-of-1) Trials: Promising Paradigms for Individualized Health Care. | Duan N, Norman D, Schmid C, Sim I, Kravitz RL | Harvard data science review | 38009133 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38009133 |
| Scientific opportunities in resilience research for cardiovascular health and wellness. Report from a National Heart, Lung, and Blood Institute workshop. | Taylor HA, Finkel T, Gao Y, Ballinger SW, Campo R, Chen R, Chen SH, Davidson K, Iruela-Arispe ML, Jaquish C, LeBrasseur NK, Odden MC, Papanicolaou GJ, Picard M, Srinivas P, Tjurmina O, Wolz M, Galis ZS | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 36322029 | FASEB J | 2022 Dec | https://www.ncbi.nlm.nih.gov/pubmed/36322029 |
| A Series of Personalized Virtual Light Therapy Interventions for Fatigue: Feasibility Randomized Crossover Trial for N-of-1 Treatment. | Butler M, D'Angelo S, Ahn H, Chandereng T, Miller D, Perrin A, Romain AN, Scatoni A, Friel CP, Cheung YK, Davidson KW | JMIR formative research | 37721795 | JMIR Form Res | 2023 Sep 18 | https://www.ncbi.nlm.nih.gov/pubmed/37721795 |
| A Series of Remote Melatonin Supplement Interventions for Poor Sleep: Protocol for a Feasibility Pilot Study for a Series of Personalized (N-of-1) Trials. | Butler M, D'Angelo S, Perrin A, Rodillas J, Miller D, Arader L, Chandereng T, Cheung YK, Shechter A, Davidson KW | JMIR research protocols | 37535419 | JMIR Res Protoc | 2023 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/37535419 |
| Personalized Trial Ethics and Institutional Review Board Submissions. | Samuel JP, Wootton SH | Harvard data science review | 38283318 | Harv Data Sci Rev | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/38283318 |
| The DNA glycosylase NEIL2 plays a vital role in combating SARS-CoV-2 infection. | Hazra T, Tapryal N, Chakraborty A, Rayavara K, Wakamiya M, Islam A, Pan L, Hsu J, Tat V, Maruyama J, Hosoki K, Sayed I, Alcantara J, Castillo V, Tindle C, Sarker A, Cardenas V, Sharma G, Alexander LC, Sur S, Ghosh G, Paessler S, Sahoo D, Ghosh P, Das S, Boldogh I, Tseng CT | Research square | 35665009 | Res Sq | 2022 May 27 | https://www.ncbi.nlm.nih.gov/pubmed/35665009 |
| Microfluidics-Based Organism Isolation from Whole Blood: An Emerging Tool for Bloodstream Infection Diagnosis. | Burklund A, Zhang JXJ | Annals of biomedical engineering | 30980291 | Ann Biomed Eng | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/30980291 |
| Biomimetic hierarchical walnut kernel-like and erythrocyte-like mesoporous silica nanomaterials: controllable synthesis and versatile applications. | Hao N, Nie Y, Zhang JXJ | Microporous and mesoporous materials : the official journal of the International Zeolite Association | 29479288 | Microporous Mesoporous Mater | 2018 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/29479288 |
| Advances in liquid biopsy on-chip for cancer management: Technologies, biomarkers, and clinical analysis. | Tadimety A, Closson A, Li C, Yi S, Shen T, Zhang JXJ | Critical reviews in clinical laboratory sciences | 29388456 | Crit Rev Clin Lab Sci | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29388456 |
| Ultrafast Synthesis of Multifunctional Submicrometer Hollow Silica Spheres in Microfluidic Spiral Channels. | Nie Y, Hao N, Zhang JXJ | Scientific reports | 28974729 | Sci Rep | 2017 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/28974729 |
| Patterned Plasmonic Surfaces-Theory, Fabrication, and Applications in Biosensing. | Chorsi HT, Zhu Y, Zhang JXJ | Journal of microelectromechanical systems : a joint IEEE and ASME publication on microstructures, microactuators, microsensors, and microsystems | 29276365 | J Microelectromech Syst | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29276365 |
| Scalable Signature-Based Molecular Diagnostics Through On-chip Biomarker Profiling Coupled with Machine Learning. | Molinski J, Tadimety A, Burklund A, Zhang JXJ | Annals of biomedical engineering | 32816167 | Ann Biomed Eng | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32816167 |
| Multifunctional Pacemaker Lead for Cardiac Energy Harvesting and Pressure Sensing. | Dong L, Closson AB, Jin C, Nie Y, Cabe A, Escobedo D, Huang S, Trase I, Xu Z, Chen Z, Feldman MD, Zhang JXJ | Advanced healthcare materials | 32347010 | Adv Healthc Mater | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32347010 |
| Flexible Piezoelectric Nanogenerators Using Metal-doped ZnO-PVDF Films. | Jin C, Hao N, Xu Z, Trase I, Nie Y, Dong L, Closson A, Chen Z, Zhang JXJ | Sensors and actuators. A, Physical | 33380776 | Sens Actuators A Phys | 2020 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/33380776 |
| Plasmonic Nanoparticle Conjugation for Nucleic Acid Biosensing. | Tadimety A, Zhang Y, Molinski JH, Palinski TJ, Tsongalis GJ, Zhang JXJ | Methods in molecular biology (Clifton, N.J.) | 34837175 | Methods Mol Biol | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/34837175 |
| Combined immunomagnetic capture coupled with ultrasensitive plasmonic detection of circulating tumor cells in blood. | Shen W, Song Y, Burklund A, Le B, Zhang R, Wang L, Xi Y, Qian K, Shen T, Zhang JXJ | Biomedical microdevices | 30417219 | Biomed Microdevices | 2018 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/30417219 |
| Ultrafast microfluidic synthesis of hierarchical triangular silver core-silica shell nanoplatelet toward enhanced cellular internalization. | Hao N, Nie Y, Xu Z, Zhang JXJ | Journal of colloid and interface science | 30771632 | J Colloid Interface Sci | 2019 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/30771632 |
| Microfluidics for ZnO micro-/nanomaterials development: rational design, controllable synthesis, and on-chip bioapplications. | Hao N, Zhang M, Zhang JXJ | Biomaterials science | 31965125 | Biomater Sci | 2020 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/31965125 |
| Vibration-Energy-Harvesting System: Transduction Mechanisms, Frequency Tuning Techniques, and Biomechanical Applications. | Dong L, Closson AB, Jin C, Trase I, Chen Z, Zhang JXJ | Advanced materials technologies | 33829079 | Adv Mater Technol | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/33829079 |
| Microfluidic In Situ Patterning of Silver Nanoparticles for Surface-Enhanced Raman Spectroscopic Sensing of Biomolecules. | Nie Y, Jin C, Zhang JXJ | ACS sensors | 34148342 | ACS Sens | 2021 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/34148342 |
| Tunable Buckled Beams with Mesoporous PVDF-TrFE/SWCNT Composite Film for Energy Harvesting. | Xu Z, Liu Y, Dong L, Closson AB, Hao N, Oglesby M, Escobar GP, Fu S, Han X, Wen C, Liu J, Feldman MD, Chen Z, Zhang JXJ | ACS applied materials & interfaces | 30199624 | ACS Appl Mater Interfaces | 2018 Oct 3 | https://www.ncbi.nlm.nih.gov/pubmed/30199624 |
| Microfluidic enrichment of bacteria coupled to contact-free lysis on a magnetic polymer surface for downstream molecular detection. | Burklund A, Petryk JD, Hoopes PJ, Zhang JXJ | Biomicrofluidics | 32642021 | Biomicrofluidics | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/32642021 |
| Microfluidics for silica biomaterials synthesis: opportunities and challenges. | Hao N , Nie Y , Zhang JXJ | Biomaterials science | 30919847 | Biomater Sci | 2019 May 28 | https://www.ncbi.nlm.nih.gov/pubmed/30919847 |
| Microfluidic continuous flow synthesis of functional hollow spherical silica with hierarchical sponge-like large porous shell. | Hao N, Nie Y, Xu Z, Closson AB, Usherwood T, J Zhang JX | Chemical engineering journal (Lausanne, Switzerland : 1996) | 31762686 | Chem Eng J | 2019 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/31762686 |
| Silver nanoparticle on zinc oxide array for label-free detection of opioids through surface-enhanced raman spectroscopy. | Zhang M, Jin C, Nie Y, Ren Y, Hao N, Xu Z, Dong L, Zhang JXJ | RSC advances | 35423637 | RSC Adv | 2021 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/35423637 |
| Microfluidics-enabled rational design of immunomagnetic nanomaterials and their shape effect on liquid biopsy. | Hao N, Nie Y, Shen T, Zhang JXJ | Lab on a chip | 29923569 | Lab Chip | 2018 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/29923569 |
| Microfluidic synthesis and on-chip enrichment application of two-dimensional hollow sandwich-like mesoporous silica nanosheet with water ripple-like surface. | Hao N, Nie Y, Closson AB, Zhang JXJ | Journal of colloid and interface science | 30576991 | J Colloid Interface Sci | 2019 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/30576991 |
| Microfluidics-enabled rapid manufacturing of hierarchical silica-magnetic microflower toward enhanced circulating tumor cell screening. | Hao N , Nie Y , Tadimety A , Shen T , Zhang JXJ | Biomaterials science | 30375583 | Biomater Sci | 2018 Nov 20 | https://www.ncbi.nlm.nih.gov/pubmed/30375583 |
| Plasmonic nanosensors for point-of-care biomarker detection. | Jin C, Wu Z, Molinski JH, Zhou J, Ren Y, Zhang JXJ | Materials today. Bio | 35514435 | Mater Today Bio | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/35514435 |
| Implantable Cardiac Kirigami-Inspired Lead-Based Energy Harvester Fabricated by Enhanced Piezoelectric Composite Film. | Xu Z, Jin C, Cabe A, Escobedo D, Gruslova A, Jenney S, Closson AB, Dong L, Chen Z, Feldman MD, Zhang JXJ | Advanced healthcare materials | 33434407 | Adv Healthc Mater | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33434407 |
| Microfluidics-mediated self-template synthesis of anisotropic hollow ellipsoidal mesoporous silica nanomaterials. | Hao N, Nie Y, Tadimety A, Closson AB, Zhang JXJ | Materials research letters | 30854261 | Mater Res Lett | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/30854261 |
| Microfluidics-enabled rational design of ZnO micro-/nanoparticles with enhanced photocatalysis, cytotoxicity, and piezoelectric properties. | Hao N, Xu Z, Nie Y, Jin C, Closson AB, Zhang M, Zhang JXJ | Chemical engineering journal (Lausanne, Switzerland : 1996) | 32831625 | Chem Eng J | 2019 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/32831625 |
| Flexible Electrostatic Transducer Array with Displacement Control for Haptic Sensing and Actuation. | Trase I, Tan HZ, Chen Z, Zhang JXJ | Sensors and actuators. A, Physical | 33380777 | Sens Actuators A Phys | 2021 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/33380777 |
| Edge effect of strained bilayer nanofilms for tunable multistability and actuation. | Hu N, Han X, Huang S, Grover HM, Yu X, Zhang LN, Trase I, Zhang JX, Zhang L, Dong LX, Chen Z | Nanoscale | 28067396 | Nanoscale | 2017 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/28067396 |
| Method for Inkjet-printing PEDOT:PSS polymer electrode arrays on piezoelectric PVDF-TrFE fibers. | Closson A, Richards H, Xu Z, Jin C, Dong L, Zhang JXJ | IEEE sensors journal | 34899077 | IEEE Sens J | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34899077 |
| Fibroblasts: Diverse Cells Critical to Biomaterials Integration. | Hannan RT, Peirce SM, Barker TH | ACS biomaterials science & engineering | 31440581 | ACS Biomater Sci Eng | 2018 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/31440581 |
| Detection of an Integrin-Binding Mechanoswitch within Fibronectin during Tissue Formation and Fibrosis. | Cao L, Nicosia J, Larouche J, Zhang Y, Bachman H, Brown AC, Holmgren L, Barker TH | ACS nano | 28699736 | ACS Nano | 2017 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/28699736 |
| Fibroblasts: The arbiters of extracellular matrix remodeling. | DeLeon-Pennell KY, Barker TH, Lindsey ML | Matrix biology : journal of the International Society for Matrix Biology | 32504772 | Matrix Biol | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32504772 |
| Feeling Things Out: Bidirectional Signaling of the Cell-ECM Interface, Implications in the Mechanobiology of Cell Spreading, Migration, Proliferation, and Differentiation. | Miller AE, Hu P, Barker TH | Advanced healthcare materials | 32037719 | Adv Healthc Mater | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32037719 |
| Spatial-omics: Novel approaches to probe cell heterogeneity and extracellular matrix biology. | Bingham GC, Lee F, Naba A, Barker TH | Matrix biology : journal of the International Society for Matrix Biology | 32416243 | Matrix Biol | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32416243 |
| Strain-dependent glutathionylation of fibronectin fibers impacts mechano-chemical behavior and primes an integrin switch. | Li W, Moretti L, Su X, Yeh CR, Torres MP, Barker TH | Nature communications | 39384749 | Nat Commun | 2024 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/39384749 |
| Citrullination of fibronectin alters integrin clustering and focal adhesion stability promoting stromal cell invasion. | Stefanelli VL, Choudhury S, Hu P, Liu Y, Schwenzer A, Yeh CR, Chambers DM, von Beck K, Li W, Segura T, Midwood KS, Torres M, Barker TH | Matrix biology : journal of the International Society for Matrix Biology | 31004743 | Matrix Biol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31004743 |
| LEM domain-containing protein 3 antagonizes TGFβ-SMAD2/3 signaling in a stiffness-dependent manner in both the nucleus and cytosol. | Chambers DM, Moretti L, Zhang JJ, Cooper SW, Chambers DM, Santangelo PJ, Barker TH | The Journal of biological chemistry | 30108174 | J Biol Chem | 2018 Oct 12 | https://www.ncbi.nlm.nih.gov/pubmed/30108174 |
| Multi-scale models of lung fibrosis. | Leonard-Duke J, Evans S, Hannan RT, Barker TH, Bates JHT, Bonham CA, Moore BB, Kirschner DE, Peirce SM | Matrix biology : journal of the International Society for Matrix Biology | 32438056 | Matrix Biol | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32438056 |
| Thy-1 in Integrin Mediated Mechanotransduction. | Hu P, Barker TH | Frontiers in cell and developmental biology | 30859101 | Front Cell Dev Biol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30859101 |
| The fibrotic tumor stroma. | Yamauchi M, Barker TH, Gibbons DL, Kurie JM | The Journal of clinical investigation | 29293090 | J Clin Invest | 2018 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/29293090 |
| αvβ3 Integrin drives fibroblast contraction and strain stiffening of soft provisional matrix during progressive fibrosis. | Fiore VF, Wong SS, Tran C, Tan C, Xu W, Sulchek T, White ES, Hagood JS, Barker TH | JCI insight | 30333317 | JCI Insight | 2018 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/30333317 |
| Macrophage and Fibroblast Interactions in Biomaterial-Mediated Fibrosis. | Witherel CE, Abebayehu D, Barker TH, Spiller KL | Advanced healthcare materials | 30658015 | Adv Healthc Mater | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30658015 |
| Platelets prime hematopoietic and vascular niche to drive angiocrine-mediated liver regeneration. | Shido K, Chavez D, Cao Z, Ko J, Rafii S, Ding BS | Signal transduction and targeted therapy | 29201496 | Signal Transduct Target Ther | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29201496 |
| Epigenetic profiles signify cell fate plasticity in unipotent spermatogonial stem and progenitor cells. | Liu Y, Giannopoulou EG, Wen D, Falciatori I, Elemento O, Allis CD, Rafii S, Seandel M | Nature communications | 27117588 | Nat Commun | 2016 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/27117588 |
| Direct conversion of human amniotic cells into endothelial cells without transitioning through a pluripotent state. | Ginsberg M, Schachterle W, Shido K, Rafii S | Nature protocols | 26540589 | Nat Protoc | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26540589 |
| Sox17 drives functional engraftment of endothelium converted from non-vascular cells. | Schachterle W, Badwe CR, Palikuqi B, Kunar B, Ginsberg M, Lis R, Yokoyama M, Elemento O, Scandura JM, Rafii S | Nature communications | 28091527 | Nat Commun | 2017 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/28091527 |
| Systems Biology Analysis of Temporal Dynamics That Govern Endothelial Response to Cyclic Stretch. | Lai MW, Chow N, Checco A, Kunar B, Redmond D, Rafii S, Rabbany SY | Biomolecules | 36551265 | Biomolecules | 2022 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/36551265 |
| Angiocrine functions of organ-specific endothelial cells. | Rafii S, Butler JM, Ding BS | Nature | 26791722 | Nature | 2016 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/26791722 |
| Open the gates: vascular neurocrine signaling mobilizes hematopoietic stem and progenitor cells. | Itkin T, Gómez-Salinero JM, Rafii S | The Journal of clinical investigation | 29130939 | J Clin Invest | 2017 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/29130939 |
| Endothelial jagged-2 sustains hematopoietic stem and progenitor reconstitution after myelosuppression. | Guo P, Poulos MG, Palikuqi B, Badwe CR, Lis R, Kunar B, Ding BS, Rabbany SY, Shido K, Butler JM, Rafii S | The Journal of clinical investigation | 29058691 | J Clin Invest | 2017 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/29058691 |
| Molecular Checkpoint Decisions Made by Subverted Vascular Niche Transform Indolent Tumor Cells into Chemoresistant Cancer Stem Cells. | Cao Z, Scandura JM, Inghirami GG, Shido K, Ding BS, Rafii S | Cancer cell | 27989801 | Cancer Cell | 2017 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/27989801 |
| Conversion of adult endothelium to immunocompetent haematopoietic stem cells. | Lis R, Karrasch CC, Poulos MG, Kunar B, Redmond D, Duran JGB, Badwe CR, Schachterle W, Ginsberg M, Xiang J, Tabrizi AR, Shido K, Rosenwaks Z, Elemento O, Speck NA, Butler JM, Scandura JM, Rafii S | Nature | 28514438 | Nature | 2017 May 25 | https://www.ncbi.nlm.nih.gov/pubmed/28514438 |
| Platelet-derived SDF-1 primes the pulmonary capillary vascular niche to drive lung alveolar regeneration. | Rafii S, Cao Z, Lis R, Siempos II, Chavez D, Shido K, Rabbany SY, Ding BS | Nature cell biology | 25621952 | Nat Cell Biol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25621952 |
| Adaptable haemodynamic endothelial cells for organogenesis and tumorigenesis. | Palikuqi B, Nguyen DT, Li G, Schreiner R, Pellegata AF, Liu Y, Redmond D, Geng F, Lin Y, Gómez-Salinero JM, Yokoyama M, Zumbo P, Zhang T, Kunar B, Witherspoon M, Han T, Tedeschi AM, Scottoni F, Lipkin SM, Dow L, Elemento O, Xiang JZ, Shido K, Spence JR, Zhou QJ, Schwartz RE, De Coppi P, Rabbany SY, Rafii S | Nature | 32908310 | Nature | 2020 Sep | https://www.ncbi.nlm.nih.gov/pubmed/32908310 |
| In vitro conversion of adult murine endothelial cells to hematopoietic stem cells. | Barcia Durán JG, Lis R, Lu TM, Rafii S | Nature protocols | 30429596 | Nat Protoc | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30429596 |
| Transplantation of Endothelial Cells to Mitigate Acute and Chronic Radiation Injury to Vital Organs. | Rafii S, Ginsberg M, Scandura J, Butler JM, Ding BS | Radiation research | 27459700 | Radiat Res | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27459700 |
| Endothelial Jak3 expression enhances pro-hematopoietic angiocrine function in mice. | Barcia Durán JG, Lu T, Houghton S, Geng F, Schreiner R, Xiang J, Rafii S, Redmond D, Lis R | Communications biology | 33767339 | Commun Biol | 2021 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/33767339 |
| Morphological characterization of Etv2 vascular explants using fractal analysis and atomic force microscopy. | Adelson RP, Palikuqi B, Weiss Z, Checco A, Schreiner R, Rafii S, Rabbany SY | Microvascular research | 34146583 | Microvasc Res | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34146583 |
| Mechanical adjuncts for cardiocerebral resuscitation. | Riess ML, Balzer C | Expert review of medical devices | 31353970 | Expert Rev Med Devices | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31353970 |
| Intralipid Increases Nitric Oxide Release from Human Endothelial Cells During Oxidative Stress. | Weihrauch D, Shumpert SD, Larson ME, McVey N, Krolikowski JG, Bamkole O, Riess ML | JPEN. Journal of parenteral and enteral nutrition | 32291784 | JPEN J Parenter Enteral Nutr | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/32291784 |
| Opioid-induced cardioprotection. | Tanaka K, Kersten JR, Riess ML | Current pharmaceutical design | 24502571 | Curr Pharm Des | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24502571 |
| Therapeutic Hypothermia in Children. | Riess ML, Aufderheide TP, Yannopoulos D | The New England journal of medicine | 26332560 | N Engl J Med | 2015 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/26332560 |
| Buffer glucose adjustment affects myocardial function after ischemia-reperfusion in long-term diabetic rat isolated hearts. | Balzer C, Cleveland WJ, Li Z, Riess ML | Physiological reports | 36324287 | Physiol Rep | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36324287 |
| Venous Waveform Analysis Correlates With Echocardiography in Detecting Hypovolemia in a Rat Hemorrhage Model. | Lefevre RJ, Balzer C, Baudenbacher FJ, Riess ML, Hernandez A, Eagle SS | Seminars in cardiothoracic and vascular anesthesia | 32957831 | Semin Cardiothorac Vasc Anesth | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/32957831 |
| Noninvasively Measured Hemoglobin Concentration Reflects Arterial Hemoglobin Concentration Before but Not After Cardiopulmonary Bypass in Patients Undergoing Coronary Artery or Valve Surgery. | Riess ML, Pagel PS | Journal of cardiothoracic and vascular anesthesia | 27475734 | J Cardiothorac Vasc Anesth | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27475734 |
| Identifying Candidates for Advanced Hemodynamic Support After Cardiac Arrest. | Bartos JA, Doonan AL, Yannopoulos D | Circulation | 29335287 | Circulation | 2018 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/29335287 |
| Role of epinephrine and extracorporeal membrane oxygenation in the management of ischemic refractory ventricular fibrillation: a randomized trial in pigs. | Bartos JA, Voicu S, Matsuura TR, Tsangaris A, Sideris G, Oestreich BA, George SA, Olson M, Shekar KC, Rees JN, Carlson K, Sebastian P, McKnite S, Raveendran G, Aufderheide TP, Yannopoulos D | JACC. Basic to translational science | 29152600 | JACC Basic Transl Sci | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29152600 |
| Identifying Important Gaps in Randomized Controlled Trials of Adult Cardiac Arrest Treatments: A Systematic Review of the Published Literature. | Sinha SS, Sukul D, Lazarus JJ, Polavarapu V, Chan PS, Neumar RW, Nallamothu BK | Circulation. Cardiovascular quality and outcomes | 27756794 | Circ Cardiovasc Qual Outcomes | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27756794 |
| Non-invasive cardiac output monitoring during sinus surgery. | Gollapudy S, Riess ML | Journal of anesthesia | 25543335 | J Anesth | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25543335 |
| Total intravenous versus inhaled anesthesia in transsphenoidal tumor surgery. | Gollapudy S, Poetker DM, Sidhu J, Riess ML | American journal of otolaryngology | 30017373 | Am J Otolaryngol | 2018 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/30017373 |
| Reperfusion injury protection during Basic Life Support improves circulation and survival outcomes in a porcine model of prolonged cardiac arrest. | Debaty G, Lurie K, Metzger A, Lick M, Bartos JA, Rees JN, McKnite S, Puertas L, Pepe P, Fowler R, Yannopoulos D | Resuscitation | 27211835 | Resuscitation | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27211835 |
| Poloxamer 188 Protects Isolated Adult Mouse Cardiomyocytes from Reoxygenation Injury. | Salzman MM, Bartos JA, Yannopoulos D, Riess ML | Pharmacology research & perspectives | 33073927 | Pharmacol Res Perspect | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33073927 |
| High central venous pressure amplitude predicts successful defibrillation in a porcine model of cardiac arrest. | Balzer C, Eagle SS, Yannopoulos D, Aufderheide TP, Riess ML | Resuscitation | 36736947 | Resuscitation | 2023 Apr | https://www.ncbi.nlm.nih.gov/pubmed/36736947 |
| Venous waveform analysis detects acute right ventricular failure in a rat respiratory arrest model. | Lefevre RJ, Barajas MB, Balzer C, Baudenbacher FJ, Riess ML, Staudt G, Hernandez A, Eagle SS | Pediatric research | 36042330 | Pediatr Res | 2023 May | https://www.ncbi.nlm.nih.gov/pubmed/36042330 |
| Anaesthetic Postconditioning at the Initiation of CPR Improves Myocardial and Mitochondrial Function in a Pig Model of Prolonged Untreated Ventricular Fibrillation. | Riess ML, Matsuura TR, Bartos JA, Bienengraeber M, Aldakkak M, McKnite SH, Rees JN, Aufderheide TP, Sarraf M, Neumar RW, Yannopoulos D | Resuscitation | 25281906 | Resuscitation | 2014 Dec | https://www.ncbi.nlm.nih.gov/pubmed/25281906 |
| Arterial flow waveforms, vascular tone, and chronic fatigue: a case report. | Zundel MT, Pattyn M, Chelimsky TC, Riess ML | Autonomic neuroscience : basic & clinical | 25817901 | Auton Neurosci | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25817901 |
| Surgical Field Visualization during Functional Endoscopic Sinus Surgery: Comparison of Propofol- vs Desflurane-Based Anesthesia. | Gollapudy S, Gashkoff DA, Poetker DM, Loehrl TA, Riess ML | Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery | 32450733 | Otolaryngol Head Neck Surg | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32450733 |
| Early Effects of Prolonged Cardiac Arrest and Ischemic Postconditioning during Cardiopulmonary Resuscitation on Cardiac and Brain Mitochondrial Function in Pigs. | Matsuura TR, Bartos JA, Tsangaris A, Shekar KC, Olson MD, Riess ML, Bienengraeber M, Aufderheide TP, Neumar RW, Rees JN, McKnite SH, Dikalova AE, Dikalov SI, Douglas HF, Yannopoulos D | Resuscitation | 28408349 | Resuscitation | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28408349 |
| New Developments in Cardiac Arrest Management. | Riess ML | Advances in anesthesia | 28867873 | Adv Anesth | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/28867873 |
| Simulated traumatic brain injury in in-vitro mouse neuronal and brain endothelial cell culture models. | Meyer LJ, Lotze FP, Riess ML | Journal of pharmacological and toxicological methods | 35149185 | J Pharmacol Toxicol Methods | 2022 Mar-Apr | https://www.ncbi.nlm.nih.gov/pubmed/35149185 |
| PPARγ-Independent Side Effects of Thiazolidinediones on Mitochondrial Redox State in Rat Isolated Hearts. | Riess ML, Elorbany R, Weihrauch D, Stowe DF, Camara AKS | Cells | 31968546 | Cells | 2020 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/31968546 |
| Poloxamer 188 Exerts Direct Protective Effects on Mouse Brain Microvascular Endothelial Cells in an In Vitro Traumatic Brain Injury Model. | Lotze FP, Riess ML | Biomedicines | 34440247 | Biomedicines | 2021 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/34440247 |
| Sodium nitroprusside enhanced cardiopulmonary resuscitation improves short term survival in a porcine model of ischemic refractory ventricular fibrillation. | Yannopoulos D, Bartos JA, George SA, Sideris G, Voicu S, Oestreich B, Matsuura T, Shekar K, Rees J, Aufderheide TP | Resuscitation | 27771299 | Resuscitation | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27771299 |
| Potential Effects of Poloxamer 188 on Rat Isolated Brain Mitochondria after Oxidative Stress In Vivo and In Vitro. | Pille JA, Riess ML | Brain sciences | 33477541 | Brain Sci | 2021 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/33477541 |
| Minnesota Resuscitation Consortium's Advanced Perfusion and Reperfusion Cardiac Life Support Strategy for Out-of-Hospital Refractory Ventricular Fibrillation. | Yannopoulos D, Bartos JA, Martin C, Raveendran G, Missov E, Conterato M, Frascone RJ, Trembley A, Sipprell K, John R, George S, Carlson K, Brunsvold ME, Garcia S, Aufderheide TP | Journal of the American Heart Association | 27412906 | J Am Heart Assoc | 2016 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/27412906 |
| Novelties in pharmacological management of cardiopulmonary resuscitation. | Bartos JA, Yannopoulos D | Current opinion in critical care | 23995130 | Curr Opin Crit Care | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23995130 |
| Increasing body mass index predicts increasing difficulty, failure rate, and time to discovery of failure of epidural anesthesia in laboring patients. | Kula AO, Riess ML, Ellinas EH | Journal of clinical anesthesia | 28235511 | J Clin Anesth | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28235511 |
| Sounds Impossible, but It's Knot. | Smith LE, Heath DR, Riess ML | Anesthesiology | 30632983 | Anesthesiology | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30632983 |
| Outcomes of intermediate-risk patients treated with transcatheter and surgical aortic valve replacement in the Veterans Affairs Healthcare System: A single center 20-year experience. | Garcia S, Kelly R, Mbai M, Gurevich S, Oestreich B, Yannopoulos D, Adabag S | Catheterization and cardiovascular interventions : official journal of the Society for Cardiac Angiography & Interventions | 29316204 | Catheter Cardiovasc Interv | 2018 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/29316204 |
| Lipid emulsion enhances cardiac performance after ischemia-reperfusion in isolated hearts from summer-active arctic ground squirrels. | Salzman MM, Cheng Q, Deklotz RJ, Dulai GK, Douglas HF, Dikalova AE, Weihrauch D, Barnes BM, Riess ML | Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology | 28364393 | J Comp Physiol B | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28364393 |
| Video laryngoscopic oral intubation in rats: a simple and effective method. | Balzer C, Cleveland WJ, Jinka TR, Riess ML | American journal of physiology. Lung cellular and molecular physiology | 32233786 | Am J Physiol Lung Cell Mol Physiol | 2020 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/32233786 |
| MicroRNA-21 Mediates Isoflurane-induced Cardioprotection against Ischemia-Reperfusion Injury via Akt/Nitric Oxide Synthase/Mitochondrial Permeability Transition Pore Pathway. | Qiao S, Olson JM, Paterson M, Yan Y, Zaja I, Liu Y, Riess ML, Kersten JR, Liang M, Warltier DC, Bosnjak ZJ, Ge ZD | Anesthesiology | 26259139 | Anesthesiology | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26259139 |
| Bundled postconditioning therapies improve hemodynamics and neurologic recovery after 17 min of untreated cardiac arrest. | Bartos JA, Matsuura TR, Sarraf M, Youngquist ST, McKnite SH, Rees JN, Sloper DT, Bates FS, Segal N, Debaty G, Lurie KG, Neumar RW, Metzger JM, Riess ML, Yannopoulos D | Resuscitation | 25447036 | Resuscitation | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25447036 |
| Early Access to the Cardiac Catheterization Laboratory for Patients Resuscitated From Cardiac Arrest Due to a Shockable Rhythm: The Minnesota Resuscitation Consortium Twin Cities Unified Protocol. | Garcia S, Drexel T, Bekwelem W, Raveendran G, Caldwell E, Hodgson L, Wang Q, Adabag S, Mahoney B, Frascone R, Helmer G, Lick C, Conterato M, Baran K, Bart B, Bachour F, Roh S, Panetta C, Stark R, Haugland M, Mooney M, Wesley K, Yannopoulos D | Journal of the American Heart Association | 26744380 | J Am Heart Assoc | 2016 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/26744380 |
| Design and Implementation of a Rat Ex Vivo Lung Perfusion Model. | Cleveland WJ, Hees JE, Balzer C, Douglas HF, Stevens T, Riess ML | Journal of visualized experiments : JoVE | 37306411 | J Vis Exp | 2023 May 26 | https://www.ncbi.nlm.nih.gov/pubmed/37306411 |
| A new method to predict return of spontaneous circulation by peripheral intravenous analysis during cardiopulmonary resuscitation: a rat model pilot study. | Balzer C, Eagle SS, Baudenbacher FJ, Riess ML | Intensive care medicine experimental | 39531090 | Intensive Care Med Exp | 2024 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/39531090 |
| A Paper-Based Test for Screening Newborns for Sickle Cell Disease. | Piety NZ, George A, Serrano S, Lanzi MR, Patel PR, Noli MP, Kahan S, Nirenberg D, Camanda JF, Airewele G, Shevkoplyas SS | Scientific reports | 28367971 | Sci Rep | 2017 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/28367971 |
| Quantifying morphological heterogeneity: a study of more than 1 000 000 individual stored red blood cells. | Piety NZ, Gifford SC, Yang X, Shevkoplyas SS | Vox sanguinis | 25900518 | Vox Sang | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25900518 |
| C4d deposits on the surface of RBCs in trauma patients and interferes with their function. | Muroya T, Kannan L, Ghiran IC, Shevkoplyas SS, Paz Z, Tsokos M, Dalle Lucca JJ, Shapiro NI, Tsokos GC | Critical care medicine | 24448198 | Crit Care Med | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24448198 |
| Density-based separation in multiphase systems provides a simple method to identify sickle cell disease. | Kumar AA, Patton MR, Hennek JW, Lee SY, D'Alesio-Spina G, Yang X, Kanter J, Shevkoplyas SS, Brugnara C, Whitesides GM | Proceedings of the National Academy of Sciences of the United States of America | 25197072 | Proc Natl Acad Sci U S A | 2014 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/25197072 |
| Shape matters: the effect of red blood cell shape on perfusion of an artificial microvascular network. | Piety NZ, Reinhart WH, Pourreau PH, Abidi R, Shevkoplyas SS | Transfusion | 26711854 | Transfusion | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26711854 |
| Validation of a Low-Cost Paper-Based Screening Test for Sickle Cell Anemia. | Piety NZ, Yang X, Kanter J, Vignes SM, George A, Shevkoplyas SS | PloS one | 26735691 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26735691 |
| Influence of feeding hematocrit and perfusion pressure on hematocrit reduction (Fåhraeus effect) in an artificial microvascular network. | Reinhart WH, Piety NZ, Shevkoplyas SS | Microcirculation (New York, N.Y. : 1994) | 28801994 | Microcirculation | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28801994 |
| Optimal hematocrit in an artificial microvascular network. | Piety NZ, Reinhart WH, Stutz J, Shevkoplyas SS | Transfusion | 28681482 | Transfusion | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28681482 |
| A rapid paper-based test for quantifying sickle hemoglobin in blood samples from patients with sickle cell disease. | Piety NZ, Yang X, Lezzar D, George A, Shevkoplyas SS | American journal of hematology | 25689370 | Am J Hematol | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25689370 |
| Dynamics of shape recovery by stored red blood cells during washing at the single cell level. | Lu M, Shevkoplyas SS | Transfusion | 32748970 | Transfusion | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32748970 |
| Deep ensemble learning enables highly accurate classification of stored red blood cell morphology. | Routt AH, Yang N, Piety NZ, Lu M, Shevkoplyas SS | Scientific reports | 36823298 | Sci Rep | 2023 Feb 23 | https://www.ncbi.nlm.nih.gov/pubmed/36823298 |
| Controlled incremental filtration: a simplified approach to design and fabrication of high-throughput microfluidic devices for selective enrichment of particles. | Gifford SC, Spillane AM, Vignes SM, Shevkoplyas SS | Lab on a chip | 25254358 | Lab Chip | 2014 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/25254358 |
| Washing stored red blood cells in an albumin solution improves their morphologic and hemorheologic properties. | Reinhart WH, Piety NZ, Deuel JW, Makhro A, Schulzki T, Bogdanov N, Goede JS, Bogdanova A, Abidi R, Shevkoplyas SS | Transfusion | 25752902 | Transfusion | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25752902 |
| Traditional and emerging technologies for washing and volume reducing blood products. | Lu M, Lezzar DL, Vörös E, Shevkoplyas SS | Journal of blood medicine | 30655711 | J Blood Med | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/30655711 |
| Substituting Sodium Hydrosulfite with Sodium Metabisulfite Improves Long-Term Stability of a Distributable Paper-Based Test Kit for Point-of-Care Screening for Sickle Cell Anemia. | Torabian K, Lezzar D, Piety NZ, George A, Shevkoplyas SS | Biosensors | 28930183 | Biosensors (Basel) | 2017 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/28930183 |
| Centrifugation-free washing reduces buildup of potassium and free hemoglobin in washed red blood cells after the procedure. | Vörös E, Lu M, Lezzar D, Shevkoplyas SS | American journal of hematology | 30184257 | Am J Hematol | 2018 Dec | https://www.ncbi.nlm.nih.gov/pubmed/30184257 |
| A portable system for processing donated whole blood into high quality components without centrifugation. | Gifford SC, Strachan BC, Xia H, Vörös E, Torabian K, Tomasino TA, Griffin GD, Lichtiger B, Aung FM, Shevkoplyas SS | PloS one | 29346441 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29346441 |
| The relationship between red blood cell deformability metrics and perfusion of an artificial microvascular network. | Sosa JM, Nielsen ND, Vignes SM, Chen TG, Shevkoplyas SS | Clinical hemorheology and microcirculation | 23603326 | Clin Hemorheol Microcirc | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/23603326 |
| Influence of red blood cell aggregation on perfusion of an artificial microvascular network. | Reinhart WH, Piety NZ, Shevkoplyas SS | Microcirculation (New York, N.Y. : 1994) | 27647727 | Microcirculation | 2017 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27647727 |
| Simple paper-based test for measuring blood hemoglobin concentration in resource-limited settings. | Yang X, Piety NZ, Vignes SM, Benton MS, Kanter J, Shevkoplyas SS | Clinical chemistry | 23788584 | Clin Chem | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23788584 |
| Improved expansion of T cells in culture when isolated with an equipment-free, high-throughput, flow-through microfluidic module versus traditional density gradient centrifugation. | Strachan BC, Xia H, Vörös E, Gifford SC, Shevkoplyas SS | Cytotherapy | 30660490 | Cytotherapy | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30660490 |
| Microfluidic capillary networks are more sensitive than ektacytometry to the decline of red blood cell deformability induced by storage. | Piety NZ, Stutz J, Yilmaz N, Xia H, Yoshida T, Shevkoplyas SS | Scientific reports | 33436749 | Sci Rep | 2021 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/33436749 |
| Towards bedside washing of stored red blood cells: a prototype of a simple apparatus based on microscale sedimentation in normal gravity. | Khanal G, Huynh RA, Torabian K, Xia H, Vörös E, Shevkoplyas SS | Vox sanguinis | 29067695 | Vox Sang | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/29067695 |
| Washing in hypotonic saline reduces the fraction of irreversibly-damaged cells in stored blood: a proof-of-concept study. | Xia H, Khanal G, Strachan BC, Vörös E, Piety NZ, Gifford SC, Shevkoplyas SS | Blood transfusion = Trasfusione del sangue | 28686152 | Blood Transfus | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28686152 |
| Effect of osmolality on erythrocyte rheology and perfusion of an artificial microvascular network. | Reinhart WH, Piety NZ, Goede JS, Shevkoplyas SS | Microvascular research | 25660474 | Microvasc Res | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25660474 |
| A high-throughput microfluidic approach for 1000-fold leukocyte reduction of platelet-rich plasma. | Xia H, Strachan BC, Gifford SC, Shevkoplyas SS | Scientific reports | 27775049 | Sci Rep | 2016 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/27775049 |
| Deterioration of red blood cell mechanical properties is reduced in anaerobic storage. | Burns JM, Yoshida T, Dumont LJ, Yang X, Piety NZ, Shevkoplyas SS | Blood transfusion = Trasfusione del sangue | 26674833 | Blood Transfus | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26674833 |
| Centrifugation-free washing: A novel approach for removing immunoglobulin A from stored red blood cells. | Vörös E, Piety NZ, Strachan BC, Lu M, Shevkoplyas SS | American journal of hematology | 29285804 | Am J Hematol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29285804 |
| Exposing the Three-Dimensional Biogeography and Metabolic States of Pathogens in Cystic Fibrosis Sputum via Hydrogel Embedding, Clearing, and rRNA Labeling. | DePas WH, Starwalt-Lee R, Van Sambeek L, Ravindra Kumar S, Gradinaru V, Newman DK | mBio | 27677788 | mBio | 2016 Sep 27 | https://www.ncbi.nlm.nih.gov/pubmed/27677788 |
| SutA is a bacterial transcription factor expressed during slow growth in Pseudomonas aeruginosa. | Babin BM, Bergkessel M, Sweredoski MJ, Moradian A, Hess S, Newman DK, Tirrell DA | Proceedings of the National Academy of Sciences of the United States of America | 26787849 | Proc Natl Acad Sci U S A | 2016 Feb 2 | https://www.ncbi.nlm.nih.gov/pubmed/26787849 |
| Identification of Fitness Determinants during Energy-Limited Growth Arrest in Pseudomonas aeruginosa. | Basta DW, Bergkessel M, Newman DK | mBio | 29184024 | mBio | 2017 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/29184024 |
| Chlorate Specifically Targets Oxidant-Starved, Antibiotic-Tolerant Populations of Pseudomonas aeruginosa Biofilms. | Spero MA, Newman DK | mBio | 30254119 | mBio | 2018 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/30254119 |
| 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 |
| Pediatric Cystic Fibrosis Sputum Can Be Chemically Dynamic, Anoxic, and Extremely Reduced Due to Hydrogen Sulfide Formation. | Cowley ES, Kopf SH, LaRiviere A, Ziebis W, Newman DK | mBio | 26220964 | mBio | 2015 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/26220964 |
| Sputum glucose and glycemic control in cystic fibrosis-related diabetes: a cross-sectional study. | Van Sambeek L, Cowley ES, Newman DK, Kato R | PloS one | 25803537 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25803537 |
| Refining the Application of Microbial Lipids as Tracers of Staphylococcus aureus Growth Rates in Cystic Fibrosis Sputum. | Neubauer C, Kasi AS, Grahl N, Sessions AL, Kopf SH, Kato R, Hogan DA, Newman DK | Journal of bacteriology | 30249710 | J Bacteriol | 2018 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/30249710 |
| Ferrous iron is a significant component of bioavailable iron in cystic fibrosis airways. | Hunter RC, Asfour F, Dingemans J, Osuna BL, Samad T, Malfroot A, Cornelis P, Newman DK | mBio | 23963183 | mBio | 2013 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/23963183 |
| Refinement of metabolite detection in cystic fibrosis sputum reveals heme correlates with lung function decline. | Glasser NR, Hunter RC, Liou TG, Newman DK, Mountain West CF Consortium Investigators | PloS one | 31851705 | PLoS One | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31851705 |
| Upregulation of virulence genes promotes Vibrio cholerae biofilm hyperinfectivity. | Gallego-Hernandez AL, DePas WH, Park JH, Teschler JK, Hartmann R, Jeckel H, Drescher K, Beyhan S, Newman DK, Yildiz FH | Proceedings of the National Academy of Sciences of the United States of America | 32355001 | Proc Natl Acad Sci U S A | 2020 May 19 | https://www.ncbi.nlm.nih.gov/pubmed/32355001 |
| The physiology of growth arrest: uniting molecular and environmental microbiology. | Bergkessel M, Basta DW, Newman DK | Nature reviews. Microbiology | 27510862 | Nat Rev Microbiol | 2016 Aug 11 | https://www.ncbi.nlm.nih.gov/pubmed/27510862 |
| The dormancy-specific regulator, SutA, is intrinsically disordered and modulates transcription initiation in Pseudomonas aeruginosa. | Bergkessel M, Babin BM, VanderVelde D, Sweredoski MJ, Moradian A, Eggleston-Rangel R, Hess S, Tirrell DA, Artsimovitch I, Newman DK | Molecular microbiology | 31254296 | Mol Microbiol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31254296 |
| Phenazine redox cycling enhances anaerobic survival in Pseudomonas aeruginosa by facilitating generation of ATP and a proton-motive force. | Glasser NR, Kern SE, Newman DK | Molecular microbiology | 24612454 | Mol Microbiol | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24612454 |
| Pyocyanin degradation by a tautomerizing demethylase inhibits Pseudomonas aeruginosa biofilms. | Costa KC, Glasser NR, Conway SJ, Newman DK | Science (New York, N.Y.) | 27940577 | Science | 2017 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/27940577 |
| The Pyruvate and α-Ketoglutarate Dehydrogenase Complexes of Pseudomonas aeruginosa Catalyze Pyocyanin and Phenazine-1-carboxylic Acid Reduction via the Subunit Dihydrolipoamide Dehydrogenase. | Glasser NR, Wang BX, Hoy JA, Newman DK | The Journal of biological chemistry | 28174304 | J Biol Chem | 2017 Mar 31 | https://www.ncbi.nlm.nih.gov/pubmed/28174304 |
| Polyphosphate granule biogenesis is temporally and functionally tied to cell cycle exit during starvation in Pseudomonas aeruginosa. | Racki LR, Tocheva EI, Dieterle MG, Sullivan MC, Jensen GJ, Newman DK | Proceedings of the National Academy of Sciences of the United States of America | 28265086 | Proc Natl Acad Sci U S A | 2017 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/28265086 |
| Anaerobic bacteria grow within Candida albicans biofilms and induce biofilm formation in suspension cultures. | Fox EP, Cowley ES, Nobile CJ, Hartooni N, Newman DK, Johnson AD | Current biology : CB | 25308076 | Curr Biol | 2014 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/25308076 |
| Selective Proteomic Analysis of Antibiotic-Tolerant Cellular Subpopulations in Pseudomonas aeruginosa Biofilms. | Babin BM, Atangcho L, van Eldijk MB, Sweredoski MJ, Moradian A, Hess S, Tolker-Nielsen T, Newman DK, Tirrell DA | mBio | 29066549 | mBio | 2017 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/29066549 |
| The ferrous iron-responsive BqsRS two-component system activates genes that promote cationic stress tolerance. | Kreamer NN, Costa F, Newman DK | mBio | 25714721 | mBio | 2015 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/25714721 |
| Heavy water and (15) N labelling with NanoSIMS analysis reveals growth rate-dependent metabolic heterogeneity in chemostats. | Kopf SH, McGlynn SE, Green-Saxena A, Guan Y, Newman DK, Orphan VJ | Environmental microbiology | 25655651 | Environ Microbiol | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25655651 |
| Trace incorporation of heavy water reveals slow and heterogeneous pathogen growth rates in cystic fibrosis sputum. | Kopf SH, Sessions AL, Cowley ES, Reyes C, Van Sambeek L, Hu Y, Orphan VJ, Kato R, Newman DK | Proceedings of the National Academy of Sciences of the United States of America | 26715741 | Proc Natl Acad Sci U S A | 2016 Jan 12 | https://www.ncbi.nlm.nih.gov/pubmed/26715741 |
| Peptides displayed as high density brush polymers resist proteolysis and retain bioactivity. | Blum AP, Kammeyer JK, Yin J, Crystal DT, Rush AM, Gilson MK, Gianneschi NC | Journal of the American Chemical Society | 25314576 | J Am Chem Soc | 2014 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/25314576 |
| Stimuli-responsive nanomaterials for biomedical applications. | Blum AP, Kammeyer JK, Rush AM, Callmann CE, Hahn ME, Gianneschi NC | Journal of the American Chemical Society | 25474531 | J Am Chem Soc | 2015 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/25474531 |
| Activating Peptides for Cellular Uptake via Polymerization into High Density Brushes. | Blum AP, Kammeyer JK, Gianneschi NC | Chemical science | 26925209 | Chem Sci | 2016 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/26925209 |
| Biosynthetic Polymers as Functional Materials. | Carlini AS, Adamiak L, Gianneschi NC | Macromolecules | 27375299 | Macromolecules | 2016 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/27375299 |
| Micro- and Nanoparticles for Treating Cardiovascular Disease. | Suarez S, Almutairi A, Christman KL | Biomaterials science | 26146548 | Biomater Sci | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26146548 |
| pH-Responsive Charge-Conversion Progelator Peptides. | Carlini AS, Choi W, McCallum NC, Gianneschi NC | Advanced functional materials | 36530181 | Adv Funct Mater | 2021 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/36530181 |
| Developing injectable nanomaterials to repair the heart. | Nguyen MM, Gianneschi NC, Christman KL | Current opinion in biotechnology | 25863496 | Curr Opin Biotechnol | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25863496 |
| Intramyocardial injection of hydrogel with high interstitial spread does not impact action potential propagation. | Suarez SL, Rane AA, Muñoz A, Wright AT, Zhang SX, Braden RL, Almutairi A, McCulloch AD, Christman KL | Acta biomaterialia | 26265060 | Acta Biomater | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26265060 |
| Enzyme-Responsive Nanoparticles for Targeted Accumulation and Prolonged Retention in Heart Tissue after Myocardial Infarction. | Nguyen MM, Carlini AS, Chien MP, Sonnenberg S, Luo C, Braden RL, Osborn KG, Li Y, Gianneschi NC, Christman KL | Advanced materials (Deerfield Beach, Fla.) | 26305446 | Adv Mater | 2015 Oct 7 | https://www.ncbi.nlm.nih.gov/pubmed/26305446 |
| Degradable acetalated dextran microparticles for tunable release of an engineered hepatocyte growth factor fragment. | Suarez SL, Muñoz A, Mitchell A, Braden RL, Luo C, Cochran JR, Almutairi A, Christman KL | ACS biomaterials science & engineering | 29333489 | ACS Biomater Sci Eng | 2016 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/29333489 |
| Polymerization of a peptide-based enzyme substrate. | Hahn ME, Randolph LM, Adamiak L, Thompson MP, Gianneschi NC | Chemical communications (Cambridge, England) | 23450132 | Chem Commun (Camb) | 2013 Apr 11 | https://www.ncbi.nlm.nih.gov/pubmed/23450132 |
| Designing Acellular Injectable Biomaterial Therapeutics for Treating Myocardial Infarction and Peripheral Artery Disease. | Hernandez MJ, Christman KL | JACC. Basic to translational science | 29057375 | JACC Basic Transl Sci | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29057375 |
| UV-responsive cyclic peptide progelator bioinks. | Carlini AS, Touve MA, Fernández-Caro H, Thompson MP, Cassidy MF, Cao W, Gianneschi NC | Faraday discussions | 31549115 | Faraday Discuss | 2019 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/31549115 |
| Enzyme-directed assembly of a nanoparticle probe in tumor tissue. | Chien MP, Thompson MP, Barback CV, Ku TH, Hall DJ, Gianneschi NC | Advanced materials (Deerfield Beach, Fla.) | 23712821 | Adv Mater | 2013 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/23712821 |
| Polymerization of Protecting-Group-Free Peptides via ROMP. | Kammeyer JK, Blum AP, Adamiak L, Hahn ME, Gianneschi NC | Polymer chemistry | 24015154 | Polym Chem | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24015154 |
| Polymeric Gd-DOTA amphiphiles form spherical and fibril-shaped nanoparticle MRI contrast agents. | Randolph LM, LeGuyader CLM, Hahn ME, Andolina CM, Patterson JP, Mattrey RF, Millstone JE, Botta M, Scadeng M, Gianneschi NC | Chemical science | 30155069 | Chem Sci | 2016 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/30155069 |
| Enzyme-Targeted Nanoparticles for Delivery to Ischemic Skeletal Muscle. | Ungerleider JL, Kammeyer JK, Braden RL, Christman KL, Gianneschi NC | Polymer chemistry | 29098018 | Polym Chem | 2017 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/29098018 |
| Bioactive Peptide Brush Polymers via Photoinduced Reversible-Deactivation Radical Polymerization. | Sun H, Choi W, Zang N, Battistella C, Thompson MP, Cao W, Zhou X, Forman C, Gianneschi NC | Angewandte Chemie (International ed. in English) | 31595626 | Angew Chem Int Ed Engl | 2019 Nov 25 | https://www.ncbi.nlm.nih.gov/pubmed/31595626 |
| Development of a Synthetic 3-ketosteroid Δ(1)-dehydrogenase for the Generation of a Novel Catabolic Pathway Enabling Cholesterol Degradation in Human Cells. | D'Arcy BM, Swingle MR, Schambeau L, Pannell L, Prakash A, Honkanen RE | Scientific reports | 30979909 | Sci Rep | 2019 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/30979909 |
| In vivo imaging of oligodendrocytes with sulforhodamine 101. | Hill RA, Grutzendler J | Nature methods | 25357236 | Nat Methods | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25357236 |
| Regional Blood Flow in the Normal and Ischemic Brain Is Controlled by Arteriolar Smooth Muscle Cell Contractility and Not by Capillary Pericytes. | Hill RA, Tong L, Yuan P, Murikinati S, Gupta S, Grutzendler J | Neuron | 26119027 | Neuron | 2015 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/26119027 |
| Modulation of oligodendrocyte generation during a critical temporal window after NG2 cell division. | Hill RA, Patel KD, Goncalves CM, Grutzendler J, Nishiyama A | Nature neuroscience | 25262495 | Nat Neurosci | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25262495 |
| Perturbed neural activity disrupts cerebral angiogenesis during a postnatal critical period. | Whiteus C, Freitas C, Grutzendler J | Nature | 24305053 | Nature | 2014 Jan 16 | https://www.ncbi.nlm.nih.gov/pubmed/24305053 |
| Angiophagy: mechanism of microvascular recanalization independent of the fibrinolytic system. | Grutzendler J | Stroke | 23709741 | Stroke | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23709741 |
| In vivo imaging of cerebral microvascular plasticity from birth to death. | Harb R, Whiteus C, Freitas C, Grutzendler J | Journal of cerebral blood flow and metabolism : official journal of the International Society of Cerebral Blood Flow and Metabolism | 23093067 | J Cereb Blood Flow Metab | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23093067 |
| Label-free in vivo imaging of myelinated axons in health and disease with spectral confocal reflectance microscopy. | Schain AJ, Hill RA, Grutzendler J | Nature medicine | 24681598 | Nat Med | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24681598 |
| Microglia constitute a barrier that prevents neurotoxic protofibrillar Aβ42 hotspots around plaques. | Condello C, Yuan P, Schain A, Grutzendler J | Nature communications | 25630253 | Nat Commun | 2015 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/25630253 |
| Angiophagy prevents early embolus washout but recanalizes microvessels through embolus extravasation. | Grutzendler J, Murikinati S, Hiner B, Ji L, Lam CK, Yoo T, Gupta S, Hafler BP, Adelman RA, Yuan P, Rodriguez G | Science translational medicine | 24598589 | Sci Transl Med | 2014 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/24598589 |
| TREM2 Haplodeficiency in Mice and Humans Impairs the Microglia Barrier Function Leading to Decreased Amyloid Compaction and Severe Axonal Dystrophy. | Yuan P, Condello C, Keene CD, Wang Y, Bird TD, Paul SM, Luo W, Colonna M, Baddeley D, Grutzendler J | Neuron | 27196974 | Neuron | 2016 May 18 | https://www.ncbi.nlm.nih.gov/pubmed/27196974 |
| 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 |
| Microglia-Mediated Neuroprotection, TREM2, and Alzheimer's Disease: Evidence From Optical Imaging. | Condello C, Yuan P, Grutzendler J | Biological psychiatry | 29169609 | Biol Psychiatry | 2018 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/29169609 |
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| Computational modeling helps uncover mechanisms related to the progression of emphysema. | Suki B, Parameswaran H | Drug discovery today. Disease models | 24904681 | Drug Discov Today Dis Models | 2014 Jul 8 | https://www.ncbi.nlm.nih.gov/pubmed/24904681 |
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| Combined effects of ventilation mode and positive end-expiratory pressure on mechanics, gas exchange and the epithelium in mice with acute lung injury. | Thammanomai A, Hamakawa H, Bartolák-Suki E, Suki B | PloS one | 23326543 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23326543 |
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| Microtubule dynamics regulate cyclic stretch-induced cell alignment in human airway smooth muscle cells. | Morioka M, Parameswaran H, Naruse K, Kondo M, Sokabe M, Hasegawa Y, Suki B, Ito S | PloS one | 22022610 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/22022610 |
| Scale dependence of structure-function relationship in the emphysematous mouse lung. | Sato S, Bartolák-Suki E, Parameswaran H, Hamakawa H, Suki B | Frontiers in physiology | 26029115 | Front Physiol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26029115 |
| A computational model of the response of adherent cells to stretch and changes in substrate stiffness. | Parameswaran H, Lutchen KR, Suki B | Journal of applied physiology (Bethesda, Md. : 1985) | 24408996 | J Appl Physiol (1985) | 2014 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/24408996 |
| Proteoglycans maintain lung stability in an elastase-treated mouse model of emphysema. | Takahashi A, Majumdar A, Parameswaran H, Bartolák-Suki E, Suki B | American journal of respiratory cell and molecular biology | 24450478 | Am J Respir Cell Mol Biol | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24450478 |
| Homeostatic maintenance via degradation and repair of elastic fibers under tension. | Alves C, Araújo AD, Oliveira CL, Imsirovic J, Bartolák-Suki E, Andrade JS, Suki B | Scientific reports | 27279029 | Sci Rep | 2016 Jun 9 | https://www.ncbi.nlm.nih.gov/pubmed/27279029 |
| The major transitions of life from a network perspective. | Suki B | Frontiers in physiology | 22514542 | Front Physiol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22514542 |
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| Variable ventilation enhances ventilation without exacerbating injury in preterm lambs with respiratory distress syndrome. | Berry CA, Suki B, Polglase GR, Pillow JJ | Pediatric research | 22805999 | Pediatr Res | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22805999 |
| Monitoring the temporal changes of respiratory resistance: a novel test for the management of asthma. | Gulotta C, Suki B, Brusasco V, Pellegrino R, Gobbi A, Pedotti A, Dellacà RL | American journal of respiratory and critical care medicine | 22707741 | Am J Respir Crit Care Med | 2012 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/22707741 |
| A network model of correlated growth of tissue stiffening in pulmonary fibrosis. | Oliveira CL, Bates JH, Suki B | New journal of physics | 25484613 | New J Phys | 2014 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/25484613 |
| Aging impairs smooth muscle-mediated regulation of aortic stiffness: a defect in shock absorption function? | Gao YZ, Saphirstein RJ, Yamin R, Suki B, Morgan KG | American journal of physiology. Heart and circulatory physiology | 25128168 | Am J Physiol Heart Circ Physiol | 2014 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/25128168 |
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| Regulation of Gastrointestinal Smooth Muscle Function by Interstitial Cells. | Sanders KM, Kito Y, Hwang SJ, Ward SM | Physiology (Bethesda, Md.) | 27488743 | Physiology (Bethesda) | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27488743 |
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| Effects of recruitment/derecruitment dynamics on the efficacy of variable ventilation. | Ma B, Suki B, Bates JH | Journal of applied physiology (Bethesda, Md. : 1985) | 21372101 | J Appl Physiol (1985) | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21372101 |
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| Efficient formation of single-copy human artificial chromosomes. | Gambogi CW, Birchak GJ, Mer E, Brown DM, Yankson G, Kixmoeller K, Gavade JN, Espinoza JL, Kashyap P, Dupont CL, Logsdon GA, Heun P, Glass JI, Black BE | Science (New York, N.Y.) | 38513017 | Science | 2024 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/38513017 |
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| Behavioral and neurobiological effects of GnRH agonist treatment in mice-potential implications for puberty suppression in transgender individuals. | Anacker C, Sydnor E, Chen BK, LaGamma CC, McGowan JC, Mastrodonato A, Hunsberger HC, Shores R, Dixon RS, McEwen BS, Byne W, Meyer-Bahlburg HFL, Bockting W, Ehrhardt AA, Denny CA | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 32919399 | Neuropsychopharmacology | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32919399 |
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| Increased T Cell Differentiation and Cytolytic Function in Bangladeshi Compared to American Children. | Wagar LE, Bolen CR, Sigal N, Lopez Angel CJ, Guan L, Kirkpatrick BD, Haque R, Tibshirani RJ, Parsonnet J, Petri WA Jr, Davis MM | Frontiers in immunology | 31620139 | Front Immunol | 2019 | https://www.ncbi.nlm.nih.gov/pubmed/31620139 |
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| TRILL: ORCHESTRATING MODULAR DEEP-LEARNING WORKFLOWS FOR DEMOCRATIZED, SCALABLE PROTEIN ANALYSIS AND ENGINEERING. | Martinez ZA, Murray RM, Thomson MW | bioRxiv : the preprint server for biology | 37986952 | bioRxiv | 2023 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/37986952 |
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| KHSRP-mediated Decay of Axonally Localized Prenyl-Cdc42 mRNA Slows Nerve Regeneration. | Zdradzinski MD, Vaughn LS, Matoo S, Trumbull K, Loomis A, Thames E, Lee SJ, Perrone-Bizzozero N, Lu Q, Larsen JM, Twiss JL | bioRxiv : the preprint server for biology | 39975228 | bioRxiv | 2025 Feb 8 | https://www.ncbi.nlm.nih.gov/pubmed/39975228 |
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| G-Protein Signaling in Alzheimer's Disease: Spatial Expression Validation of Semi-supervised Deep Learning-Based Computational Framework. | Zhang DF, Penwell T, Chen YH, Koehler A, Wu R, Nik Akhtar S, Lu Q | The Journal of neuroscience : the official journal of the Society for Neuroscience | 39327003 | J Neurosci | 2024 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/39327003 |
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| Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells. | Jain N, Goyal Y, Dunagin MC, Cote CJ, Mellis IA, Emert B, Jiang CL, Dardani IP, Reffsin S, Arnett M, Yang W, Raj A | Cell systems | 38335955 | Cell Syst | 2024 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/38335955 |
| Genetic screening for single-cell variability modulators driving therapy resistance. | Torre EA, Arai E, Bayatpour S, Jiang CL, Beck LE, Emert BL, Shaffer SM, Mellis IA, Fane ME, Alicea GM, Budinich KA, Weeraratna AT, Shi J, Raj A | Nature genetics | 33398196 | Nat Genet | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33398196 |
| Social reprogramming in ants induces longevity-associated glia remodeling. | Sheng L, Shields EJ, Gospocic J, Glastad KM, Ratchasanmuang P, Berger SL, Raj A, Little S, Bonasio R | Science advances | 32875108 | Sci Adv | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/32875108 |
| Spatial transcriptomics reveals influence of microenvironment on intrinsic fates in melanoma therapy resistance. | Boe RH, Triandafillou CG, Lazcano R, Wargo JA, Raj A | bioRxiv : the preprint server for biology | 39005406 | bioRxiv | 2024 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/39005406 |
| Innate Immune Memory is Stimulus Specific. | O'Farrell A, Niu Z, Li J, Van Eyndhoven LC, Sarma K, Raj A | bioRxiv : the preprint server for biology | 39896612 | bioRxiv | 2025 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/39896612 |
| An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype. | Shah PP, Keough KC, Gjoni K, Santini GT, Abdill RJ, Wickramasinghe NM, Dundes CE, Karnay A, Chen A, Salomon REA, Walsh PJ, Nguyen SC, Whalen S, Joyce EF, Loh KM, Dubois N, Pollard KS, Jain R | Genome biology | 36691074 | Genome Biol | 2023 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/36691074 |
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| Gene regulation gravitates toward either addition or multiplication when combining the effects of two signals. | Sanford EM, Emert BL, Coté A, Raj A | eLife | 33284110 | Elife | 2020 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/33284110 |
| Changes in chromatin accessibility are not concordant with transcriptional changes for single-factor perturbations. | Kiani K, Sanford EM, Goyal Y, Raj A | Molecular systems biology | 36069349 | Mol Syst Biol | 2022 Sep | https://www.ncbi.nlm.nih.gov/pubmed/36069349 |
| Cell type determination for cardiac differentiation occurs soon after seeding of human-induced pluripotent stem cells. | Jiang CL, Goyal Y, Jain N, Wang Q, Truitt RE, Coté AJ, Emert B, Mellis IA, Kiani K, Yang W, Jain R, Raj A | Genome biology | 35382863 | Genome Biol | 2022 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/35382863 |
| Post-transcriptional splicing can occur in a slow-moving zone around the gene. | Coté A, O'Farrell A, Dardani I, Dunagin M, Coté C, Wan Y, Bayatpour S, Drexler HL, Alexander KA, Chen F, Wassie AT, Patel R, Pham K, Boyden ES, Berger S, Phillips-Cremins J, Churchman LS, Raj A | eLife | 38577979 | Elife | 2024 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/38577979 |
| Diverse clonal fates emerge upon drug treatment of homogeneous cancer cells. | Goyal Y, Busch GT, Pillai M, Li J, Boe RH, Grody EI, Chelvanambi M, Dardani IP, Emert B, Bodkin N, Braun J, Fingerman D, Kaur A, Jain N, Ravindran PT, Mellis IA, Kiani K, Alicea GM, Fane ME, Ahmed SS, Li H, Chen Y, Chai C, Kaster J, Witt RG, Lazcano R, Ingram DR, Johnson SB, Wani K, Dunagin MC, Lazar AJ, Weeraratna AT, Wargo JA, Herlyn M, Raj A | Nature | 37468627 | Nature | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37468627 |
| AP-1 Mediates Cellular Adaptation and Memory Formation During Therapy Resistance. | Li J, Ravindran PT, O'Farrell A, Busch GT, Boe RH, Niu Z, Woo S, Dunagin MC, Jain N, Goyal Y, Sarma K, Herlyn M, Raj A | bioRxiv : the preprint server for biology | 39091739 | bioRxiv | 2024 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/39091739 |
| FZD2 Regulates Murine Hair Follicle Function and Maintenance. | Brennan-Crispi DM, Frankfurter M, Murphy C, Sheng E, Xu M, Morrisey EE, Millar SE, Leung TH | The Journal of investigative dermatology | 35051380 | J Invest Dermatol | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35051380 |
| Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors. | Shaffer SM, Emert BL, Reyes Hueros RA, Cote C, Harmange G, Schaff DL, Sizemore AE, Gupte R, Torre E, Singh A, Bassett DS, Raj A | Cell | 32735851 | Cell | 2020 Aug 20 | https://www.ncbi.nlm.nih.gov/pubmed/32735851 |
| Allelic correlation is a marker of trade-offs between barriers to transmission of expression variability and signal responsiveness in genetic networks. | Boe RH, Ayyappan V, Schuh L, Raj A | Cell systems | 36450286 | Cell Syst | 2022 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/36450286 |
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| Membrane-bound model of the ternary complex between factor VIIa/tissue factor and factor X. | Muller MP, Mortenson A, Sedzro JC, Wen PC, Morrissey JH, Tajkhorshid E | Blood advances | 39671302 | Blood Adv | 2025 Feb 25 | https://www.ncbi.nlm.nih.gov/pubmed/39671302 |
| Solid-State NMR of highly (13)C-enriched cholesterol in lipid bilayers. | Della Ripa LA, Petros ZA, Cioffi AG, Piehl DW, Courtney JM, Burke MD, Rienstra CM | Methods (San Diego, Calif.) | 29366688 | Methods | 2018 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/29366688 |
| Structural Insights into the Lipid A Transport Pathway in MsbA. | Padayatti PS, Lee SC, Stanfield RL, Wen PC, Tajkhorshid E, Wilson IA, Zhang Q | Structure (London, England : 1993) | 31130486 | Structure | 2019 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/31130486 |
| Membrane Mixer: A Toolkit for Efficient Shuffling of Lipids in Heterogeneous Biological Membranes. | Licari G, Dehghani-Ghahnaviyeh S, Tajkhorshid E | Journal of chemical information and modeling | 35104125 | J Chem Inf Model | 2022 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/35104125 |
| Fungicidal amphotericin B sponges are assemblies of staggered asymmetric homodimers encasing large void volumes. | Lewandowska A, Soutar CP, Greenwood AI, Nimerovsky E, De Lio AM, Holler JT, Hisao GS, Khandelwal A, Zhang J, SantaMaria AM, Schwieters CD, Pogorelov TV, Burke MD, Rienstra CM | Nature structural & molecular biology | 34887566 | Nat Struct Mol Biol | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34887566 |
| Stoichiometric analysis reveals a unique phosphatidylserine binding site in coagulation factor X. | Paul D, Morrissey JH | Journal of thrombosis and haemostasis : JTH | 34894064 | J Thromb Haemost | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34894064 |
| Aberrant Expression of a Non-muscle RBFOX2 Isoform Triggers Cardiac Conduction Defects in Myotonic Dystrophy. | Misra C, Bangru S, Lin F, Lam K, Koenig SN, Lubbers ER, Hedhli J, Murphy NP, Parker DJ, Dobrucki LW, Cooper TA, Tajkhorshid E, Mohler PJ, Kalsotra A | Developmental cell | 32109384 | Dev Cell | 2020 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/32109384 |
| Integrating hydrogen-deuterium exchange mass spectrometry with molecular dynamics simulations to probe lipid-modulated conformational changes in membrane proteins. | Martens C, Shekhar M, Lau AM, Tajkhorshid E, Politis A | Nature protocols | 31605097 | Nat Protoc | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31605097 |
| Membrane Interactions of Cy3 and Cy5 Fluorophores and Their Effects on Membrane-Protein Dynamics. | Lam K, Tajkhorshid E | Biophysical journal | 32533943 | Biophys J | 2020 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/32533943 |
| Multivalent Polymer-Peptide Conjugates-A General Platform for Inhibiting Amyloid Beta Peptide Aggregation. | Jiang X, Halmes AJ, Licari G, Smith JW, Song Y, Moore EG, Chen Q, Tajkhorshid E, Rienstra CM, Moore JS | ACS macro letters | 32149017 | ACS Macro Lett | 2019 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/32149017 |
| Mechanism of gating and partial agonist action in the glycine receptor. | Yu J, Zhu H, Lape R, Greiner T, Du J, Lü W, Sivilotti L, Gouaux E | Cell | 33567265 | Cell | 2021 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/33567265 |
| Lactadherin's Multistate Binding Predicts Stable Membrane-Bound Conformations of Factors V and VIII's C Domains. | Cheng KJ, De Lio AM, Jain R, Paul D, Morrissey JH, Pogorelov TV | Biochemistry | 37747791 | Biochemistry | 2023 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/37747791 |
| Phosphatidylthreonine is a procoagulant lipid detected in human blood and elevated in coronary artery disease. | Hajeyah AA, Protty MB, Paul D, Costa D, Omidvar N, Morgan B, Iwasaki Y, McGill B, Jenkins PV, Yousef Z, Allen-Redpath K, Soyama S, Choudhury A, Mitra R, Yaqoob P, Morrissey JH, Collins PW, O'Donnell VB | Journal of lipid research | 38103786 | J Lipid Res | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/38103786 |
| Cross polarization stability in multidimensional NMR spectroscopy of biological solids. | Harding BD, Barclay AM, Piehl DW, Hiett A, Warmuth OA, Han R, Henzler-Wildman K, Rienstra CM | Journal of magnetic resonance (San Diego, Calif. : 1997) | 38991266 | J Magn Reson | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38991266 |
| Enhancing Spectrometer Performance with Unsupervised Machine Learning. | Harding BD, Hu Z, Hiett A, Delaglio F, Henzler-Wildman KA, Rienstra CM | The journal of physical chemistry. B | 39395040 | J Phys Chem B | 2024 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/39395040 |
| Conformational free energy landscape of a glutamate transporter and microscopic details of its transport mechanism. | Thangapandian S, Fakharzadeh A, Moradi M, Tajkhorshid E | Proceedings of the National Academy of Sciences of the United States of America | 40042900 | Proc Natl Acad Sci U S A | 2025 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/40042900 |
| Computational Dissection of Membrane Transport at a Microscopic Level. | Jiang T, Wen PC, Trebesch N, Zhao Z, Pant S, Kapoor K, Shekhar M, Tajkhorshid E | Trends in biochemical sciences | 31813734 | Trends Biochem Sci | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31813734 |
| Cryo-EM structures of a lipid-sensitive pentameric ligand-gated ion channel embedded in a phosphatidylcholine-only bilayer. | Kumar P, Wang Y, Zhang Z, Zhao Z, Cymes GD, Tajkhorshid E, Grosman C | Proceedings of the National Academy of Sciences of the United States of America | 31911476 | Proc Natl Acad Sci U S A | 2020 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/31911476 |
| Calcium-Induced Lipid Nanocluster Structures: Sculpturing of the Plasma Membrane. | Hallock MJ, Greenwood AI, Wang Y, Morrissey JH, Tajkhorshid E, Rienstra CM, Pogorelov TV | Biochemistry | 30456950 | Biochemistry | 2018 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/30456950 |
| Interaction of Alpha-Synuclein and Its Mutants with Rigid Lipid Vesicle Mimics of Varying Surface Curvature. | McClain SM, Ojoawo AM, Lin W, Rienstra CM, Murphy CJ | ACS nano | 32672441 | ACS Nano | 2020 Aug 25 | https://www.ncbi.nlm.nih.gov/pubmed/32672441 |
| Probing key elements of teixobactin-lipid II interactions in membranes. | Wen PC, Vanegas JM, Rempe SB, Tajkhorshid E | Chemical science | 30210775 | Chem Sci | 2018 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/30210775 |
| Lipids and ions traverse the membrane by the same physical pathway in the nhTMEM16 scramblase. | Jiang T, Yu K, Hartzell HC, Tajkhorshid E | eLife | 28917060 | Elife | 2017 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/28917060 |
| Lipid specificity of the membrane binding domain of coagulation factor X. | Muller MP, Wang Y, Morrissey JH, Tajkhorshid E | Journal of thrombosis and haemostasis : JTH | 28782177 | J Thromb Haemost | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28782177 |
| (1)H-Detected REDOR with Fast Magic-Angle Spinning of a Deuterated Protein. | Ghosh M, Rienstra CM | The journal of physical chemistry. B | 28816462 | J Phys Chem B | 2017 Sep 14 | https://www.ncbi.nlm.nih.gov/pubmed/28816462 |
| Targeting lipid-protein interaction to treat Syk-mediated acute myeloid leukemia. | Singaram I, Sharma A, Pant S, Lihan M, Park MJ, Pergande M, Buwaneka P, Hu Y, Mahmud N, Kim YM, Cologna S, Gevorgyan V, Khan I, Tajkhorshid E, Cho W | Nature chemical biology | 36229686 | Nat Chem Biol | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36229686 |
| Cryo-EM structures of human ABCA7 provide insights into its phospholipid translocation mechanisms. | Le LTM, Thompson JR, Dehghani-Ghahnaviyeh S, Pant S, Dang PX, French JB, Kanikeyo T, Tajkhorshid E, Alam A | The EMBO journal | 36484366 | EMBO J | 2023 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/36484366 |
| Molecular View into Preferential Binding of the Factor VII Gla Domain to Phosphatidic Acid. | Muller MP, Morrissey JH, Tajkhorshid E | Biochemistry | 35853076 | Biochemistry | 2022 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/35853076 |
| Hydrogen-deuterium exchange mass spectrometry captures distinct dynamics upon substrate and inhibitor binding to a transporter. | Jia R, Martens C, Shekhar M, Pant S, Pellowe GA, Lau AM, Findlay HE, Harris NJ, Tajkhorshid E, Booth PJ, Politis A | Nature communications | 33268777 | Nat Commun | 2020 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/33268777 |
| A serine loop in tissue factor mediates substrate selectivity by the tissue factor-factor VIIa complex. | Birkle F, Morrissey JH | Journal of thrombosis and haemostasis : JTH | 32885882 | J Thromb Haemost | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/32885882 |
| Binding mode of SARS-CoV-2 fusion peptide to human cellular membrane. | Gorgun D, Lihan M, Kapoor K, Tajkhorshid E | Biophysical journal | 33675757 | Biophys J | 2021 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/33675757 |
| A modification of γ-encoded RN symmetry pulses for increasing the scaling factor and more accurate measurements of the strong heteronuclear dipolar couplings. | Nimerovsky E, Soutar CP | Journal of magnetic resonance (San Diego, Calif. : 1997) | 32950918 | J Magn Reson | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/32950918 |
| Characterization of Lipid-Protein Interactions and Lipid-Mediated Modulation of Membrane Protein Function through Molecular Simulation. | Muller MP, Jiang T, Sun C, Lihan M, Pant S, Mahinthichaichan P, Trifan A, Tajkhorshid E | Chemical reviews | 30978005 | Chem Rev | 2019 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/30978005 |
| Direct protein-lipid interactions shape the conformational landscape of secondary transporters. | Martens C, Shekhar M, Borysik AJ, Lau AM, Reading E, Tajkhorshid E, Booth PJ, Politis A | Nature communications | 30297844 | Nat Commun | 2018 Oct 8 | https://www.ncbi.nlm.nih.gov/pubmed/30297844 |
| Myr-Arf1 conformational flexibility at the membrane surface sheds light on the interactions with ArfGAP ASAP1. | Zhang Y, Soubias O, Pant S, Heinrich F, Vogel A, Li J, Li Y, Clifton LA, Daum S, Bacia K, Huster D, Randazzo PA, Lösche M, Tajkhorshid E, Byrd RA | Nature communications | 37989735 | Nat Commun | 2023 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/37989735 |
| Asymmetric conformations and lipid interactions shape the ATP-coupled cycle of a heterodimeric ABC transporter. | Tang Q, Sinclair M, Hasdemir HS, Stein RA, Karakas E, Tajkhorshid E, Mchaourab HS | Nature communications | 37938578 | Nat Commun | 2023 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/37938578 |
| The carboxy terminus causes interfacial assembly of oleate hydratase on a membrane bilayer. | Radka CD, Grace CR, Hasdemir HS, Li Y, Rodriguez CC, Rodrigues P, Oldham ML, Qayyum MZ, Pitre A, MacCain WJ, Kalathur RC, Tajkhorshid E, Rock CO | The Journal of biological chemistry | 38211817 | J Biol Chem | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/38211817 |
| Segmental Dynamics of Membranous Cholesterol are Coupled. | Della Ripa LA, Courtney JM, Phinney SM, Borcik CG, Burke MD, Rienstra CM, Pogorelov TV | Journal of the American Chemical Society | 37410392 | J Am Chem Soc | 2023 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/37410392 |
| Automated fibril structure calculations in Xplor-NIH. | Barclay AM, Milchberg MH, Warmuth OA, Tuttle MD, Dennis CJ, Schwieters CD, Rienstra CM | Structure (London, England : 1993) | 39662464 | Structure | 2025 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/39662464 |
| A network of phosphatidylinositol 4,5-bisphosphate binding sites regulates gating of the Ca(2+)-activated Cl(-) channel ANO1 (TMEM16A). | Yu K, Jiang T, Cui Y, Tajkhorshid E, Hartzell HC | Proceedings of the National Academy of Sciences of the United States of America | 31515451 | Proc Natl Acad Sci U S A | 2019 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/31515451 |
| Structure of the alternative complex III in a supercomplex with cytochrome oxidase. | Sun C, Benlekbir S, Venkatakrishnan P, Wang Y, Hong S, Hosler J, Tajkhorshid E, Rubinstein JL, Gennis RB | Nature | 29695868 | Nature | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29695868 |
| Microscopic view of lipids and their diverse biological functions. | Wen PC, Mahinthichaichan P, Trebesch N, Jiang T, Zhao Z, Shinn E, Wang Y, Shekhar M, Kapoor K, Chan CK, Tajkhorshid E | Current opinion in structural biology | 30048836 | Curr Opin Struct Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/30048836 |
| Peridinin Is an Exceptionally Potent and Membrane-Embedded Inhibitor of Bilayer Lipid Peroxidation. | Haley HMS, Hill AG, Greenwood AI, Woerly EM, Rienstra CM, Burke MD | Journal of the American Chemical Society | 30388000 | J Am Chem Soc | 2018 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/30388000 |
| Structural basis for the reaction cycle of DASS dicarboxylate transporters. | Sauer DB, Trebesch N, Marden JJ, Cocco N, Song J, Koide A, Koide S, Tajkhorshid E, Wang DN | eLife | 32869741 | Elife | 2020 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/32869741 |
| Aβ(1-42) tetramer and octamer structures reveal edge conductivity pores as a mechanism for membrane damage. | Ciudad S, Puig E, Botzanowski T, Meigooni M, Arango AS, Do J, Mayzel M, Bayoumi M, Chaignepain S, Maglia G, Cianferani S, Orekhov V, Tajkhorshid E, Bardiaux B, Carulla N | Nature communications | 32541820 | Nat Commun | 2020 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/32541820 |
| Polymer-Peptide Conjugates Convert Amyloid into Protein Nanobundles through Fragmentation and Lateral Association. | Smith JW, Jiang X, An H, Barclay AM, Licari G, Tajkhorshid E, Moore EG, Rienstra CM, Moore JS, Chen Q | ACS applied nano materials | 32149271 | ACS Appl Nano Mater | 2020 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/32149271 |
| An Activity-Based Sensing Approach for the Detection of Cyclooxygenase-2 in Live Cells. | Yadav AK, Reinhardt CJ, Arango AS, Huff HC, Dong L, Malkowski MG, Das A, Tajkhorshid E, Chan J | Angewandte Chemie (International ed. in English) | 31854058 | Angew Chem Int Ed Engl | 2020 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/31854058 |
| Tumor-acquired somatic mutation affects conformation to abolish ABCG2-mediated drug resistance. | Gose T, Rasouli A, Dehghani-Ghahnaviyeh S, Wen PC, Wang Y, Lynch J, Fukuda Y, Shafi T, Ford RC, Tajkhorshid E, Schuetz JD | Drug resistance updates : reviews and commentaries in antimicrobial and anticancer chemotherapy | 38387283 | Drug Resist Updat | 2024 Mar | https://www.ncbi.nlm.nih.gov/pubmed/38387283 |
| Tuning sterol extraction kinetics yields a renal-sparing polyene antifungal. | Maji A, Soutar CP, Zhang J, Lewandowska A, Uno BE, Yan S, Shelke Y, Murhade G, Nimerovsky E, Borcik CG, Arango AS, Lange JD, Marin-Toledo JP, Lyu Y, Bailey KL, Roady PJ, Holler JT, Khandelwal A, SantaMaria AM, Sanchez H, Juvvadi PR, Johns G, Hageman MJ, Krise J, Gebremariam T, Youssef EG, Bartizal K, Marr KA, Steinbach WJ, Ibrahim AS, Patterson TF, Wiederhold NP, Andes DR, Pogorelov TV, Schwieters CD, Fan TM, Rienstra CM, Burke MD | Nature | 37938782 | Nature | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37938782 |
| Posttranslational modifications optimize the ability of SARS-CoV-2 spike for effective interaction with host cell receptors. | Kapoor K, Chen T, Tajkhorshid E | Proceedings of the National Academy of Sciences of the United States of America | 35737823 | Proc Natl Acad Sci U S A | 2022 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/35737823 |
| A cancer mutation promotes EphA4 oligomerization and signaling by altering the conformation of the SAM domain. | Light TP, Gomez-Soler M, Wang Z, Karl K, Zapata-Mercado E, Gehring MP, Lechtenberg BC, Pogorelov TV, Hristova K, Pasquale EB | The Journal of biological chemistry | 34139238 | J Biol Chem | 2021 Jul | https://www.ncbi.nlm.nih.gov/pubmed/34139238 |
| PIP(2)-dependent coupling of voltage sensor and pore domains in K(v)7.2 channel. | Pant S, Zhang J, Kim EC, Lam K, Chung HJ, Tajkhorshid E | Communications biology | 34650221 | Commun Biol | 2021 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/34650221 |
| Backbone amides are determinants of Cl(-) selectivity in CLC ion channels. | Leisle L, Lam K, Dehghani-Ghahnaviyeh S, Fortea E, Galpin JD, Ahern CA, Tajkhorshid E, Accardi A | Nature communications | 36473856 | Nat Commun | 2022 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/36473856 |
| Relationship among egg quality traits in Japanese quails and prediction of egg weight and color using data mining algorithms. | Çelik Ş, Eyduran E, Şengül AY, Şengül T | Tropical animal health and production | 34195902 | Trop Anim Health Prod | 2021 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/34195902 |
| APACE: AlphaFold2 and advanced computing as a service for accelerated discovery in biophysics. | Park H, Patel P, Haas R, Huerta EA | Proceedings of the National Academy of Sciences of the United States of America | 38913887 | Proc Natl Acad Sci U S A | 2024 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/38913887 |
| Editing DNA Methylation in the Mammalian Genome. | Liu XS, Wu H, Ji X, Stelzer Y, Wu X, Czauderna S, Shu J, Dadon D, Young RA, Jaenisch R | Cell | 27662091 | Cell | 2016 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/27662091 |
| Tumor-suppressor genes that escape from X-inactivation contribute to cancer sex bias. | Dunford A, Weinstock DM, Savova V, Schumacher SE, Cleary JP, Yoda A, Sullivan TJ, Hess JM, Gimelbrant AA, Beroukhim R, Lawrence MS, Getz G, Lane AA | Nature genetics | 27869828 | Nat Genet | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27869828 |
| Dynamic Enhancer DNA Methylation as Basis for Transcriptional and Cellular Heterogeneity of ESCs. | Song Y, van den Berg PR, Markoulaki S, Soldner F, Dall'Agnese A, Henninger JE, Drotar J, Rosenau N, Cohen MA, Young RA, Semrau S, Stelzer Y, Jaenisch R | Molecular cell | 31422875 | Mol Cell | 2019 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/31422875 |
| Cell state transition analysis identifies interventions that improve control of Mycobacterium tuberculosis infection by susceptible macrophages. | Yabaji SM, Rukhlenko OS, Chatterjee S, Bhattacharya B, Wood E, Kasaikina M, Kholodenko BN, Gimelbrant AA, Kramnik I | Science advances | 37756395 | Sci Adv | 2023 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/37756395 |
| Risk alleles of genes with monoallelic expression are enriched in gain-of-function variants and depleted in loss-of-function variants for neurodevelopmental disorders. | Savova V, Vinogradova S, Pruss D, Gimelbrant AA, Weiss LA | Molecular psychiatry | 28265118 | Mol Psychiatry | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28265118 |
| Establishment of human pluripotent stem cell-derived pancreatic β-like cells in the mouse pancreas. | Ma H, Wert KJ, Shvartsman D, Melton DA, Jaenisch R | Proceedings of the National Academy of Sciences of the United States of America | 29599125 | Proc Natl Acad Sci U S A | 2018 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/29599125 |
| High prevalence of clonal monoallelic expression. | Vigneau S, Vinogradova S, Savova V, Gimelbrant A | Nature genetics | 30082785 | Nat Genet | 2018 Sep | https://www.ncbi.nlm.nih.gov/pubmed/30082785 |
| 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 |
| Foreign RNA spike-ins enable accurate allele-specific expression analysis at scale. | Mendelevich A, Gupta S, Pakharev A, Teodosiadis A, Mironov AA, Gimelbrant AA | bioRxiv : the preprint server for biology | 36798258 | bioRxiv | 2023 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/36798258 |
| Foreign RNA spike-ins enable accurate allele-specific expression analysis at scale. | Mendelevich A, Gupta S, Pakharev A, Teodosiadis A, Mironov AA, Gimelbrant AA | Bioinformatics (Oxford, England) | 37387154 | Bioinformatics | 2023 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/37387154 |
| dbMAE: the database of autosomal monoallelic expression. | Savova V, Patsenker J, Vigneau S, Gimelbrant AA | Nucleic acids research | 26503248 | Nucleic Acids Res | 2016 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/26503248 |
| Replicate sequencing libraries are important for quantification of allelic imbalance. | Mendelevich A, Vinogradova S, Gupta S, Mironov AA, Sunyaev SR, Gimelbrant AA | Nature communications | 34099647 | Nat Commun | 2021 Jun 7 | https://www.ncbi.nlm.nih.gov/pubmed/34099647 |
| Rescue of Fragile X Syndrome Neurons by DNA Methylation Editing of the FMR1 Gene. | Liu XS, Wu H, Krzisch M, Wu X, Graef J, Muffat J, Hnisz D, Li CH, Yuan B, Xu C, Li Y, Vershkov D, Cacace A, Young RA, Jaenisch R | Cell | 29456084 | Cell | 2018 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/29456084 |
| RNA sequencing-based screen for reactivation of silenced alleles of autosomal genes. | Gupta S, Lafontaine DL, Vigneau S, Mendelevich A, Vinogradova S, Igarashi KJ, Bortvin A, Alves-Pereira CF, Nag A, Gimelbrant AA | G3 (Bethesda, Md.) | 35100361 | G3 (Bethesda) | 2022 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/35100361 |
| Women Are Less Likely Than Men to Be Full Professors in Cardiology: Why Does This Happen and How Can We Fix It? | Carnes M, Bairey Merz CN | Circulation | 28153988 | Circulation | 2017 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/28153988 |
| A quantitative linguistic analysis of National Institutes of Health R01 application critiques from investigators at one institution. | Kaatz A, Magua W, Zimmerman DR, Carnes M | Academic medicine : journal of the Association of American Medical Colleges | 25140529 | Acad Med | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25140529 |
| Providing Epistemic Support For Assessments Through Mobile-Supported Sharing Activities. | Raclaw J, Robles JS, DiDomenico SM | Research on language and social interaction | 28936031 | Res Lang Soc Interact | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/28936031 |
| 'Your comments are meaner than your score': score calibration talk influences intra- and inter-panel variability during scientific grant peer review. | Pier EL, Raclaw J, Kaatz A, Brauer M, Carnes M, Nathan MJ, Ford CE | Research Evaluation | 28458466 | Res Eval | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28458466 |
| Low agreement among reviewers evaluating the same NIH grant applications. | Pier EL, Brauer M, Filut A, Kaatz A, Raclaw J, Nathan MJ, Ford CE, Carnes M | Proceedings of the National Academy of Sciences of the United States of America | 29507248 | Proc Natl Acad Sci U S A | 2018 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/29507248 |
| Laughter and the Management of Divergent Positions in Peer Review Interactions. | Raclaw J, Ford CE | Journal of pragmatics | 29170594 | J Pragmat | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/29170594 |
| Stuck in the out-group: Jennifer can't grow up, Jane's invisible, and Janet's over the hill. | Kaatz A, Carnes M | Journal of women's health (2002) | 24844292 | J Womens Health (Larchmt) | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24844292 |
| Parents' Expectations for and Reactions to Children's Racial Biases. | Scott KE, Shutts K, Devine PG | Child development | 30825398 | Child Dev | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/30825398 |
| Stereotypes possess heterogeneous directionality: a theoretical and empirical exploration of stereotype structure and content. | Cox WT, Devine PG | PloS one | 25811181 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25811181 |
| Patterns of Feedback on the Bridge to Independence: A Qualitative Thematic Analysis of NIH Mentored Career Development Award Application Critiques. | Kaatz A, Dattalo M, Regner C, Filut A, Carnes M | Journal of women's health (2002) | 26418619 | J Womens Health (Larchmt) | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26418619 |
| A meta-analysis of procedures to change implicit measures. | Forscher PS, Lai CK, Axt JR, Ebersole CR, Herman M, Devine PG, Nosek BA | Journal of personality and social psychology | 31192631 | J Pers Soc Psychol | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31192631 |
| Laughter and the Chair: Social Pressures Influencing Scoring During Grant Peer Review Meetings. | Pier EL, Raclaw J, Carnes M, Ford CE, Kaatz A | Journal of general internal medicine | 30604119 | J Gen Intern Med | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/30604119 |
| Threats to objectivity in peer review: the case of gender. | Kaatz A, Gutierrez B, Carnes M | Trends in pharmacological sciences | 25086743 | Trends Pharmacol Sci | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/25086743 |
| Write More Articles, Get More Grants: The Impact of Department Climate on Faculty Research Productivity. | Sheridan J, Savoy JN, Kaatz A, Lee YG, Filut A, Carnes M | Journal of women's health (2002) | 28375751 | J Womens Health (Larchmt) | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28375751 |
| Fair Play: A Study of Scientific Workforce Trainers' Experience Playing an Educational Video Game about Racial Bias. | Kaatz A, Carnes M, Gutierrez B, Savoy J, Samuel C, Filut A, Pribbenow CM | CBE life sciences education | 28450447 | CBE Life Sci Educ | 2017 Summer | https://www.ncbi.nlm.nih.gov/pubmed/28450447 |
| Analysis of National Institutes of Health R01 Application Critiques, Impact, and Criteria Scores: Does the Sex of the Principal Investigator Make a Difference? | Kaatz A, Lee YG, Potvien A, Magua W, Filut A, Bhattacharya A, Leatherberry R, Zhu X, Carnes M | Academic medicine : journal of the Association of American Medical Colleges | 27276003 | Acad Med | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27276003 |
| Are Female Applicants Disadvantaged in National Institutes of Health Peer Review? Combining Algorithmic Text Mining and Qualitative Methods to Detect Evaluative Differences in R01 Reviewers' Critiques. | Magua W, Zhu X, Bhattacharya A, Filut A, Potvien A, Leatherberry R, Lee YG, Jens M, Malikireddy D, Carnes M, Kaatz A | Journal of women's health (2002) | 28281870 | J Womens Health (Larchmt) | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28281870 |
| Little race or gender bias in an experiment of initial review of NIH R01 grant proposals. | Forscher PS, Cox WTL, Brauer M, Devine PG | Nature human behaviour | 30953009 | Nat Hum Behav | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30953009 |
| The motivation to express prejudice. | Forscher PS, Cox WT, Graetz N, Devine PG | Journal of personality and social psychology | 26479365 | J Pers Soc Psychol | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26479365 |
| Who Resembles a Scientific Leader-Jack or Jill? How Implicit Bias Could Influence Research Grant Funding. | Kolehmainen C, Carnes M | Circulation | 29459461 | Circulation | 2018 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/29459461 |
| Breaking the prejudice habit: Mechanisms, timecourse, and longevity. | Forscher PS, Mitamura C, Dix EL, Cox WTL, Devine PG | Journal of experimental social psychology | 29225371 | J Exp Soc Psychol | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/29225371 |
| Value-Based Standards Guide Sexism Inferences for Self and Others. | Mitamura C, Erickson L, Devine PG | Journal of experimental social psychology | 29230069 | J Exp Soc Psychol | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/29230069 |
| A Gender Bias Habit-Breaking Intervention Led to Increased Hiring of Female Faculty in STEMM Departments. | Devine PG, Forscher PS, Cox WTL, Kaatz A, Sheridan J, Carnes M | Journal of experimental social psychology | 29249837 | J Exp Soc Psychol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/29249837 |
| A Psychological Profile of the Alt-Right. | Forscher PS, Kteily NS | Perspectives on psychological science : a journal of the Association for Psychological Science | 31747343 | Perspect Psychol Sci | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31747343 |
| Inferences About Sexual Orientation: The Roles of Stereotypes, Faces, and The Gaydar Myth. | Cox WT, Devine PG, Bischmann AA, Hyde JS | Journal of sex research | 26219212 | J Sex Res | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26219212 |
| Advancing Women's Health and Women's Leadership With Endowed Chairs in Women's Health. | Carnes M, Johnson P, Klein W, Jenkins M, Bairey Merz CN | Academic medicine : journal of the Association of American Medical Colleges | 27759706 | Acad Med | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/27759706 |
| Multi-disciplinary methods to define RNA-protein interactions and regulatory networks. | Ascano M, Gerstberger S, Tuschl T | Current opinion in genetics & development | 23453689 | Curr Opin Genet Dev | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23453689 |
| Inhibition Mechanism of an Anti-CRISPR Suppressor AcrIIA4 Targeting SpyCas9. | Yang H, Patel DJ | Molecular cell | 28602637 | Mol Cell | 2017 Jul 6 | https://www.ncbi.nlm.nih.gov/pubmed/28602637 |
| Identification of the RNA recognition element of the RBPMS family of RNA-binding proteins and their transcriptome-wide mRNA targets. | Farazi TA, Leonhardt CS, Mukherjee N, Mihailovic A, Li S, Max KE, Meyer C, Yamaji M, Cekan P, Jacobs NC, Gerstberger S, Bognanni C, Larsson E, Ohler U, Tuschl T | RNA (New York, N.Y.) | 24860013 | RNA | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24860013 |
| The evolutionary journey of Argonaute proteins. | Swarts DC, Makarova K, Wang Y, Nakanishi K, Ketting RF, Koonin EV, Patel DJ, van der Oost J | Nature structural & molecular biology | 25192263 | Nat Struct Mol Biol | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25192263 |
| Global target mRNA specification and regulation by the RNA-binding protein ZFP36. | Mukherjee N, Jacobs NC, Hafner M, Kennington EA, Nusbaum JD, Tuschl T, Blackshear PJ, Ohler U | Genome biology | 24401661 | Genome Biol | 2014 Jan 8 | https://www.ncbi.nlm.nih.gov/pubmed/24401661 |
| Cryo-EM Structures Reveal Mechanism and Inhibition of DNA Targeting by a CRISPR-Cas Surveillance Complex. | Guo TW, Bartesaghi A, Yang H, Falconieri V, Rao P, Merk A, Eng ET, Raczkowski AM, Fox T, Earl LA, Patel DJ, Subramaniam S | Cell | 28985564 | Cell | 2017 Oct 5 | https://www.ncbi.nlm.nih.gov/pubmed/28985564 |
| Structural basis for molecular discrimination by a 3',3'-cGAMP sensing riboswitch. | Ren A, Wang XC, Kellenberger CA, Rajashankar KR, Jones RA, Hammond MC, Patel DJ | Cell reports | 25818298 | Cell Rep | 2015 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/25818298 |
| Crystal structure reveals specific recognition of a G-quadruplex RNA by a β-turn in the RGG motif of FMRP. | Vasilyev N, Polonskaia A, Darnell JC, Darnell RB, Patel DJ, Serganov A | Proceedings of the National Academy of Sciences of the United States of America | 26374839 | Proc Natl Acad Sci U S A | 2015 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/26374839 |
| SSMART: sequence-structure motif identification for RNA-binding proteins. | Munteanu A, Mukherjee N, Ohler U | Bioinformatics (Oxford, England) | 29893814 | Bioinformatics | 2018 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/29893814 |
| Detecting actively translated open reading frames in ribosome profiling data. | Calviello L, Mukherjee N, Wyler E, Zauber H, Hirsekorn A, Selbach M, Landthaler M, Obermayer B, Ohler U | Nature methods | 26657557 | Nat Methods | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26657557 |
| Structure and function of the bacterial decapping enzyme NudC. | Höfer K, Li S, Abele F, Frindert J, Schlotthauer J, Grawenhoff J, Du J, Patel DJ, Jäschke A | Nature chemical biology | 27428510 | Nat Chem Biol | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27428510 |
| Identification of distinct miRNA target regulation between breast cancer molecular subtypes using AGO2-PAR-CLIP and patient datasets. | Farazi TA, Ten Hoeve JJ, Brown M, Mihailovic A, Horlings HM, van de Vijver MJ, Tuschl T, Wessels LF | Genome biology | 24398324 | Genome Biol | 2014 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/24398324 |
| The TIA1 RNA-Binding Protein Family Regulates EIF2AK2-Mediated Stress Response and Cell Cycle Progression. | Meyer C, Garzia A, Mazzola M, Gerstberger S, Molina H, Tuschl T | Molecular cell | 29429924 | Mol Cell | 2018 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/29429924 |
| Optimization of PAR-CLIP for transcriptome-wide identification of binding sites of RNA-binding proteins. | Garzia A, Meyer C, Morozov P, Sajek M, Tuschl T | Methods (San Diego, Calif.) | 27765618 | Methods | 2017 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/27765618 |
| DND1 maintains germline stem cells via recruitment of the CCR4-NOT complex to target mRNAs. | Yamaji M, Jishage M, Meyer C, Suryawanshi H, Der E, Yamaji M, Garzia A, Morozov P, Manickavel S, McFarland HL, Roeder RG, Hafner M, Tuschl T | Nature | 28297718 | Nature | 2017 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/28297718 |
| Small molecule inhibition of cGAS reduces interferon expression in primary macrophages from autoimmune mice. | Vincent J, Adura C, Gao P, Luz A, Lama L, Asano Y, Okamoto R, Imaeda T, Aida J, Rothamel K, Gogakos T, Steinberg J, Reasoner S, Aso K, Tuschl T, Patel DJ, Glickman JF, Ascano M | Nature communications | 28963528 | Nat Commun | 2017 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/28963528 |
| Recognition of distinct RNA motifs by the clustered CCCH zinc fingers of neuronal protein Unkempt. | Murn J, Teplova M, Zarnack K, Shi Y, Patel DJ | Nature structural & molecular biology | 26641712 | Nat Struct Mol Biol | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26641712 |
| DNA-guided DNA interference by a prokaryotic Argonaute. | Swarts DC, Jore MM, Westra ER, Zhu Y, Janssen JH, Snijders AP, Wang Y, Patel DJ, Berenguer J, Brouns SJJ, van der Oost J | Nature | 24531762 | Nature | 2014 Mar 13 | https://www.ncbi.nlm.nih.gov/pubmed/24531762 |
| FMRP targets distinct mRNA sequence elements to regulate protein expression. | Ascano M Jr, Mukherjee N, Bandaru P, Miller JB, Nusbaum JD, Corcoran DL, Langlois C, Munschauer M, Dewell S, Hafner M, Williams Z, Ohler U, Tuschl T | Nature | 23235829 | Nature | 2012 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/23235829 |
| The mRNA-bound proteome of the early fly embryo. | Wessels HH, Imami K, Baltz AG, Kolinski M, Beldovskaya A, Selbach M, Small S, Ohler U, Landthaler M | Genome research | 27197210 | Genome Res | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27197210 |
| Structure-function studies of STAR family Quaking proteins bound to their in vivo RNA target sites. | Teplova M, Hafner M, Teplov D, Essig K, Tuschl T, Patel DJ | Genes & development | 23630077 | Genes Dev | 2013 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/23630077 |
| The G3BP1-Family-USP10 Deubiquitinase Complex Rescues Ubiquitinated 40S Subunits of Ribosomes Stalled in Translation from Lysosomal Degradation. | Meyer C, Garzia A, Morozov P, Molina H, Tuschl T | Molecular cell | 31981475 | Mol Cell | 2020 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/31981475 |
| The RNA-binding protein vigilin regulates VLDL secretion through modulation of Apob mRNA translation. | Mobin MB, Gerstberger S, Teupser D, Campana B, Charisse K, Heim MH, Manoharan M, Tuschl T, Stoffel M | Nature communications | 27665711 | Nat Commun | 2016 Sep 26 | https://www.ncbi.nlm.nih.gov/pubmed/27665711 |
| The E3 ubiquitin ligase and RNA-binding protein ZNF598 orchestrates ribosome quality control of premature polyadenylated mRNAs. | Garzia A, Jafarnejad SM, Meyer C, Chapat C, Gogakos T, Morozov P, Amiri M, Shapiro M, Molina H, Tuschl T, Sonenberg N | Nature communications | 28685749 | Nat Commun | 2017 Jul 7 | https://www.ncbi.nlm.nih.gov/pubmed/28685749 |
| Global identification of functional microRNA-mRNA interactions in Drosophila. | Wessels HH, Lebedeva S, Hirsekorn A, Wurmus R, Akalin A, Mukherjee N, Ohler U | Nature communications | 30967537 | Nat Commun | 2019 Apr 9 | https://www.ncbi.nlm.nih.gov/pubmed/30967537 |
| MicroRNA target site identification by integrating sequence and binding information. | Majoros WH, Lekprasert P, Mukherjee N, Skalsky RL, Corcoran DL, Cullen BR, Ohler U | Nature methods | 23708386 | Nat Methods | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23708386 |
| Multicolor microRNA FISH effectively differentiates tumor types. | Renwick N, Cekan P, Masry PA, McGeary SE, Miller JB, Hafner M, Li Z, Mihailovic A, Morozov P, Brown M, Gogakos T, Mobin MB, Snorrason EL, Feilotter HE, Zhang X, Perlis CS, Wu H, Suárez-Fariñas M, Feng H, Shuda M, Moore PS, Tron VA, Chang Y, Tuschl T | The Journal of clinical investigation | 23728175 | J Clin Invest | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23728175 |
| A phosphate-binding pocket within the platform-PAZ-connector helix cassette of human Dicer. | Tian Y, Simanshu DK, Ma JB, Park JE, Heo I, Kim VN, Patel DJ | Molecular cell | 24486018 | Mol Cell | 2014 Feb 20 | https://www.ncbi.nlm.nih.gov/pubmed/24486018 |
| Integrative classification of human coding and noncoding genes through RNA metabolism profiles. | Mukherjee N, Calviello L, Hirsekorn A, de Pretis S, Pelizzola M, Ohler U | Nature structural & molecular biology | 27870833 | Nat Struct Mol Biol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27870833 |
| Simultaneous detection of the subcellular localization of RNAs and proteins in cultured cells by combined multicolor RNA-FISH and IF. | Meyer C, Garzia A, Tuschl T | Methods (San Diego, Calif.) | 27664292 | Methods | 2017 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/27664292 |
| PAM-Dependent Target DNA Recognition and Cleavage by C2c1 CRISPR-Cas Endonuclease. | Yang H, Gao P, Rajashankar KR, Patel DJ | Cell | 27984729 | Cell | 2016 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/27984729 |
| Deciphering human ribonucleoprotein regulatory networks. | Mukherjee N, Wessels HH, Lebedeva S, Sajek M, Ghanbari M, Garzia A, Munteanu A, Yusuf D, Farazi T, Hoell JI, Akat KM, Akalin A, Tuschl T, Ohler U | Nucleic acids research | 30517751 | Nucleic Acids Res | 2019 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/30517751 |
| Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA. | Liu Y, Esyunina D, Olovnikov I, Teplova M, Kulbachinskiy A, Aravin AA, Patel DJ | Cell reports | 29996105 | Cell Rep | 2018 Jul 10 | https://www.ncbi.nlm.nih.gov/pubmed/29996105 |
| Purification of cross-linked RNA-protein complexes by phenol-toluol extraction. | Urdaneta EC, Vieira-Vieira CH, Hick T, Wessels HH, Figini D, Moschall R, Medenbach J, Ohler U, Granneman S, Selbach M, Beckmann BM | Nature communications | 30824702 | Nat Commun | 2019 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/30824702 |
| omniCLIP: probabilistic identification of protein-RNA interactions from CLIP-seq data. | Drewe-Boss P, Wessels HH, Ohler U | Genome biology | 30384847 | Genome Biol | 2018 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/30384847 |
| 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 |
| Human cGAS catalytic domain has an additional DNA-binding interface that enhances enzymatic activity and liquid-phase condensation. | Xie W, Lama L, Adura C, Tomita D, Glickman JF, Tuschl T, Patel DJ | Proceedings of the National Academy of Sciences of the United States of America | 31142647 | Proc Natl Acad Sci U S A | 2019 Jun 11 | https://www.ncbi.nlm.nih.gov/pubmed/31142647 |
| Structural basis underlying CAC RNA recognition by the RRM domain of dimeric RNA-binding protein RBPMS. | Teplova M, Farazi TA, Tuschl T, Patel DJ | Quarterly reviews of biophysics | 26347403 | Q Rev Biophys | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26347403 |
| Self-Assembly of a 3D DNA Crystal Structure with Rationally Designed Six-Fold Symmetry. | Zhang F, Simmons CR, Gates J, Liu Y, Yan H | Angewandte Chemie (International ed. in English) | 30066355 | Angew Chem Int Ed Engl | 2018 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/30066355 |
| Nanocaged enzymes with enhanced catalytic activity and increased stability against protease digestion. | Zhao Z, Fu J, Dhakal S, Johnson-Buck A, Liu M, Zhang T, Woodbury NW, Liu Y, Walter NG, Yan H | Nature communications | 26861509 | Nat Commun | 2016 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/26861509 |
| Tuning the Cavity Size and Chirality of Self-Assembling 3D DNA Crystals. | Simmons CR, Zhang F, MacCulloch T, Fahmi N, Stephanopoulos N, Liu Y, Seeman NC, Yan H | Journal of the American Chemical Society | 28731332 | J Am Chem Soc | 2017 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/28731332 |
| Monovalent streptavidin that senses oligonucleotides. | Taylor SK, Wang J, Kostic N, Stojanovic MN | Angewandte Chemie (International ed. in English) | 23606329 | Angew Chem Int Ed Engl | 2013 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/23606329 |
| Engineering nucleic acid structures for programmable molecular circuitry and intracellular biocomputation. | Li J, Green AA, Yan H, Fan C | Nature chemistry | 29064489 | Nat Chem | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/29064489 |
| High-Affinity Nucleic-Acid-Based Receptors for Steroids. | Yang KA, Chun H, Zhang Y, Pecic S, Nakatsuka N, Andrews AM, Worgall TS, Stojanovic MN | ACS chemical biology | 29083858 | ACS Chem Biol | 2017 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/29083858 |
| Amplification of Signal on Cell Surfaces in Molecular Cascades. | Rudchenko S, Taylor S, Milosavic N, Rudchenko M, Wedderhoff Tissi B, Mapara MY, Stojanovic MN | Cells | 38132177 | Cells | 2023 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/38132177 |
| A DNA nanorobot functions as a cancer therapeutic in response to a molecular trigger in vivo. | Li S, Jiang Q, Liu S, Zhang Y, Tian Y, Song C, Wang J, Zou Y, Anderson GJ, Han JY, Chang Y, Liu Y, Zhang C, Chen L, Zhou G, Nie G, Yan H, Ding B, Zhao Y | Nature biotechnology | 29431737 | Nat Biotechnol | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29431737 |
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| Aptamer-field-effect transistors overcome Debye length limitations for small-molecule sensing. | Nakatsuka N, Yang KA, Abendroth JM, Cheung KM, Xu X, Yang H, Zhao C, Zhu B, Rim YS, Yang Y, Weiss PS, Stojanović MN, Andrews AM | Science (New York, N.Y.) | 30190311 | Science | 2018 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/30190311 |
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| Integrated Microfluidic Isolation of Aptamers Using Electrophoretic Oligonucleotide Manipulation. | Kim J, Olsen TR, Zhu J, Hilton JP, Yang KA, Pei R, Stojanovic MN, Lin Q | Scientific reports | 27217242 | Sci Rep | 2016 May 24 | https://www.ncbi.nlm.nih.gov/pubmed/27217242 |
| DNA origami nanostructures can exhibit preferential renal uptake and alleviate acute kidney injury. | Jiang D, Ge Z, Im HJ, England CG, Ni D, Hou J, Zhang L, Kutyreff CJ, Yan Y, Liu Y, Cho SY, Engle JW, Shi J, Huang P, Fan C, Yan H, Cai W | Nature biomedical engineering | 30505626 | Nat Biomed Eng | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/30505626 |
| Recognition and sensing of low-epitope targets via ternary complexes with oligonucleotides and synthetic receptors. | Yang KA, Barbu M, Halim M, Pallavi P, Kim B, Kolpashchikov DM, Pecic S, Taylor S, Worgall TS, Stojanovic MN | Nature chemistry | 25343606 | Nat Chem | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25343606 |
| Integrated Microfluidic Aptasensor for Mass Spectrometric Detection of Vasopressin in Human Plasma Ultrafiltrate. | Yang J, Zhu J, Pei R, Oliver JA, Landry DW, Stojanovic MN, Lin Q | Analytical methods : advancing methods and applications | 28090219 | Anal Methods | 2016 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/28090219 |
| A Three-Enzyme Pathway with an Optimised Geometric Arrangement to Facilitate Substrate Transfer. | Liu M, Fu J, Qi X, Wootten S, Woodbury NW, Liu Y, Yan H | Chembiochem : a European journal of chemical biology | 26995014 | Chembiochem | 2016 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/26995014 |
| INTEGRATED MICROFLUIDIC SELEX USING FREE SOLUTION ELECTROKINETICS. | Olsen TR, Tapia-Alveal C, Yang KA, Zhang X, Pereira LJ, Farmakidis N, Pei R, Stojanovic MN, Lin Q | Journal of the Electrochemical Society | 29170564 | J Electrochem Soc | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/29170564 |
| Insulin Hexamer-Caged Gadolinium Ion as MRI Contrast-o-phore. | Taylor SK, Tran TH, Liu MZ, Harris PE, Sun Y, Jambawalikar SR, Tong L, Stojanovic MN | Chemistry (Weinheim an der Bergstrasse, Germany) | 29873848 | Chemistry | 2018 Jul 25 | https://www.ncbi.nlm.nih.gov/pubmed/29873848 |
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| Rapid directed molecular evolution of fluorescent proteins in mammalian cells. | Babakhanova S, Jung EE, Namikawa K, Zhang H, Wang Y, Subach OM, Korzhenevskiy DA, Rakitina TV, Xiao X, Wang W, Shi J, Drobizhev M, Park D, Eisenhard L, Tang H, Köster RW, Subach FV, Boyden ES, Piatkevich KD | Protein science : a publication of the Protein Society | 34913537 | Protein Sci | 2022 Mar | https://www.ncbi.nlm.nih.gov/pubmed/34913537 |
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| 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 |
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| Spatiotemporal Dynamics of Dexmedetomidine-Induced Electroencephalogram Oscillations. | Akeju O, Kim SE, Vazquez R, Rhee J, Pavone KJ, Hobbs LE, Purdon PL, Brown EN | PloS one | 27711165 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27711165 |
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| Lack of Responsiveness during the Onset and Offset of Sevoflurane Anesthesia Is Associated with Decreased Awake-Alpha Oscillation Power. | Pavone KJ, Su L, Gao L, Eromo E, Vazquez R, Rhee J, Hobbs LE, Ibala R, Demircioglu G, Purdon PL, Brown EN, Akeju O | Frontiers in systems neuroscience | 28611601 | Front Syst Neurosci | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28611601 |
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| 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 |
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| 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 |
| 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 |
| 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 |
| Near-Infrared Fluorescent Proteins Engineered from Bacterial Phytochromes in Neuroimaging. | Piatkevich KD, Suk HJ, Kodandaramaiah SB, Yoshida F, DeGennaro EM, Drobizhev M, Hughes TE, Desimone R, Boyden ES, Verkhusha VV | Biophysical journal | 29017728 | Biophys J | 2017 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/29017728 |
| Thalamocortical synchronization during induction and emergence from propofol-induced unconsciousness. | Flores FJ, Hartnack KE, Fath AB, Kim SE, Wilson MA, Brown EN, Purdon PL | Proceedings of the National Academy of Sciences of the United States of America | 28743752 | Proc Natl Acad Sci U S A | 2017 Aug 8 | https://www.ncbi.nlm.nih.gov/pubmed/28743752 |
| 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 |
| 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 |
| Mesenchymal stem cells for the treatment of neurodegenerative disease. | Joyce N, Annett G, Wirthlin L, Olson S, Bauer G, Nolta JA | Regenerative medicine | 21082892 | Regen Med | 2010 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21082892 |
| Mesenchymal stem cells for the sustained in vivo delivery of bioactive factors. | Meyerrose T, Olson S, Pontow S, Kalomoiris S, Jung Y, Annett G, Bauer G, Nolta JA | Advanced drug delivery reviews | 20920540 | Adv Drug Deliv Rev | 2010 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/20920540 |
| Examination of mesenchymal stem cell-mediated RNAi transfer to Huntington's disease affected neuronal cells for reduction of huntingtin. | Olson SD, Kambal A, Pollock K, Mitchell GM, Stewart H, Kalomoiris S, Cary W, Nacey C, Pepper K, Nolta JA | Molecular and cellular neurosciences | 22198539 | Mol Cell Neurosci | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22198539 |
| Preclinical evaluation of mesenchymal stem cells overexpressing VEGF to treat critical limb ischemia. | Beegle JR, Magner NL, Kalomoiris S, Harding A, Zhou P, Nacey C, White JL, Pepper K, Gruenloh W, Annett G, Nolta JA, Fierro FA | Molecular therapy. Methods & clinical development | 27610394 | Mol Ther Methods Clin Dev | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27610394 |
| The Complex Ethics of First In Human Stem Cell Clinical Trials. | Yarborough M, Tempkin T, Nolta J, Joyce N | AJOB neuroscience | 24273680 | AJOB Neurosci | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/24273680 |
| Human Mesenchymal Stem Cells Genetically Engineered to Overexpress Brain-derived Neurotrophic Factor Improve Outcomes in Huntington's Disease Mouse Models. | Pollock K, Dahlenburg H, Nelson H, Fink KD, Cary W, Hendrix K, Annett G, Torrest A, Deng P, Gutierrez J, Nacey C, Pepper K, Kalomoiris S, D Anderson J, McGee J, Gruenloh W, Fury B, Bauer G, Duffy A, Tempkin T, Wheelock V, Nolta JA | Molecular therapy : the journal of the American Society of Gene Therapy | 26765769 | Mol Ther | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26765769 |
| Comprehensive Proteomic Analysis of Mesenchymal Stem Cell Exosomes Reveals Modulation of Angiogenesis via Nuclear Factor-KappaB Signaling. | Anderson JD, Johansson HJ, Graham CS, Vesterlund M, Pham MT, Bramlett CS, Montgomery EN, Mellema MS, Bardini RL, Contreras Z, Hoon M, Bauer G, Fink KD, Fury B, Hendrix KJ, Chedin F, El-Andaloussi S, Hwang B, Mulligan MS, Lehtiö J, Nolta JA | Stem cells (Dayton, Ohio) | 26782178 | Stem Cells | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26782178 |
| Signaling defects in iPSC-derived fragile X premutation neurons. | Liu J, Koscielska KA, Cao Z, Hulsizer S, Grace N, Mitchell G, Nacey C, Githinji J, McGee J, Garcia-Arocena D, Hagerman RJ, Nolta J, Pessah IN, Hagerman PJ | Human molecular genetics | 22641815 | Hum Mol Genet | 2012 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/22641815 |
| Directing mesenchymal stem cells to bone to augment bone formation and increase bone mass. | Guan M, Yao W, Liu R, Lam KS, Nolta J, Jia J, Panganiban B, Meng L, Zhou P, Shahnazari M, Ritchie RO, Lane NE | Nature medicine | 22306732 | Nat Med | 2012 Feb 5 | https://www.ncbi.nlm.nih.gov/pubmed/22306732 |
| Genetically engineered mesenchymal stem cells as a proposed therapeutic for Huntington's disease. | Olson SD, Pollock K, Kambal A, Cary W, Mitchell GM, Tempkin J, Stewart H, McGee J, Bauer G, Kim HS, Tempkin T, Wheelock V, Annett G, Dunbar G, Nolta JA | Molecular neurobiology | 22161544 | Mol Neurobiol | 2012 Feb | https://www.ncbi.nlm.nih.gov/pubmed/22161544 |
| Clinical translation of stem cells: insight for cartilage therapies. | Lee JK, Responte DJ, Cissell DD, Hu JC, Nolta JA, Athanasiou KA | Critical reviews in biotechnology | 24083452 | Crit Rev Biotechnol | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24083452 |
| Human Myoblast and Mesenchymal Stem Cell Interactions Visualized by Videomicroscopy. | Black AB, Dahlenburg H, Pepper K, Nacey C, Pontow S, Kuhn MA, Belafsky PC, Nolta JA | Human gene therapy methods | 26544924 | Hum Gene Ther Methods | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26544924 |
| BMI1 Regulation of Self-Renewal and Multipotency in Human Mesenchymal Stem Cells. | Jung Y, Nolta JA | Current stem cell research & therapy | 26763885 | Curr Stem Cell Res Ther | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26763885 |
| Preclinical translation of exosomes derived from mesenchymal stem/stromal cells. | Elahi FM, Farwell DG, Nolta JA, Anderson JD | Stem cells (Dayton, Ohio) | 31381842 | Stem Cells | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31381842 |
| Mesenchymal stem cells for trinucleotide repeat disorders. | Annett G, Bauer G, Nolta JA | Methods in molecular biology (Clifton, N.J.) | 23754220 | Methods Mol Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23754220 |
| Fibroblast Growth Factor 2 Regulates High Mobility Group A2 Expression in Human Bone Marrow-Derived Mesenchymal Stem Cells. | Kalomoiris S, Cicchetto AC, Lakatos K, Nolta JA, Fierro FA | Journal of cellular biochemistry | 26888666 | J Cell Biochem | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26888666 |
| Clinical trial perspective for adult and juvenile Huntington's disease using genetically-engineered mesenchymal stem cells. | Deng P, Torrest A, Pollock K, Dahlenburg H, Annett G, Nolta JA, Fink KD | Neural regeneration research | 27335539 | Neural Regen Res | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27335539 |
| Potential long-term treatment of hemophilia A by neonatal co-transplantation of cord blood-derived endothelial colony-forming cells and placental mesenchymal stromal cells. | Gao K, Kumar P, Cortez-Toledo E, Hao D, Reynaga L, Rose M, Wang C, Farmer D, Nolta J, Zhou J, Zhou P, Wang A | Stem cell research & therapy | 30670078 | Stem Cell Res Ther | 2019 Jan 22 | https://www.ncbi.nlm.nih.gov/pubmed/30670078 |
| Exosomes Derived from Human Primed Mesenchymal Stem Cells Induce Mitosis and Potentiate Growth Factor Secretion. | Yuan O, Lin C, Wagner J, Archard JA, Deng P, Halmai J, Bauer G, Fink KD, Fury B, Perotti NH, Walker JE, Pollock K, Apperson M, Butters J, Belafsky P, Farwell DG, Kuhn M, Nolta J, Anderson JD | Stem cells and development | 30638129 | Stem Cells Dev | 2019 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/30638129 |
| Efficient Generation of Induced Pluripotent Stem and Neural Progenitor Cells From Acutely Harvested Dura Mater Obtained During Ventriculoperitoneal Shunt Surgery. | Cary WA, Hori CN, Pham MT, Nacey CA, McGee JL, Hamou M, Berman RF, Bauer G, Nolta JA, Waldau B | World neurosurgery | 26074438 | World Neurosurg | 2015 Nov | https://www.ncbi.nlm.nih.gov/pubmed/26074438 |
| HDACs regulate the differentiation of endothelial cells from human iPSCs. | Li T, Wu H, Wang P, Kim AM, Jia J, Nolta JA, Zhou P | Cell biochemistry and function | 35789099 | Cell Biochem Funct | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35789099 |
| Role of MEF2C in the Endothelial Cells Derived from Human Induced Pluripotent Stem Cells. | Li T, Conroy KL, Kim AM, Halmai J, Gao K, Moreno E, Wang A, Passerini AG, Nolta JA, Zhou P | Stem cells (Dayton, Ohio) | 36639926 | Stem Cells | 2023 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/36639926 |
| Effects on proliferation and differentiation of multipotent bone marrow stromal cells engineered to express growth factors for combined cell and gene therapy. | Fierro FA, Kalomoiris S, Sondergaard CS, Nolta JA | Stem cells (Dayton, Ohio) | 21898687 | Stem Cells | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21898687 |
| Concise review: Induced pluripotent stem cell-derived mesenchymal stem cells: progress toward safe clinical products. | Jung Y, Bauer G, Nolta JA | Stem cells (Dayton, Ohio) | 21898694 | Stem Cells | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21898694 |
| Concise review: MicroRNA function in multipotent mesenchymal stromal cells. | Clark EA, Kalomoiris S, Nolta JA, Fierro FA | Stem cells (Dayton, Ohio) | 24860868 | Stem Cells | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24860868 |
| Insulin and IGFs enhance hepatocyte differentiation from human embryonic stem cells via the PI3K/AKT pathway. | Magner NL, Jung Y, Wu J, Nolta JA, Zern MA, Zhou P | Stem cells (Dayton, Ohio) | 23836547 | Stem Cells | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23836547 |
| Novel targeted therapy for neuroblastoma: silencing the MXD3 gene using siRNA. | Duong C, Yoshida S, Chen C, Barisone G, Diaz E, Li Y, Beckett L, Chung J, Antony R, Nolta J, Nitin N, Satake N | Pediatric research | 28419087 | Pediatr Res | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28419087 |
| Intravitreal Administration of Human Bone Marrow CD34+ Stem Cells in a Murine Model of Retinal Degeneration. | Moisseiev E, Smit-McBride Z, Oltjen S, Zhang P, Zawadzki RJ, Motta M, Murphy CJ, Cary W, Annett G, Nolta JA, Park SS | Investigative ophthalmology & visual science | 27537262 | Invest Ophthalmol Vis Sci | 2016 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/27537262 |
| "Next-generation" mesenchymal stem or stromal cells for the in vivo delivery of bioactive factors: progressing toward the clinic. | Nolta JA | Transfusion | 27079315 | Transfusion | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27079315 |
| Developing stem cell therapies for juvenile and adult-onset Huntington's disease. | Fink KD, Deng P, Torrest A, Stewart H, Pollock K, Gruenloh W, Annett G, Tempkin T, Wheelock V, Nolta JA | Regenerative medicine | 26237705 | Regen Med | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26237705 |
| Hypoxic preconditioning of mesenchymal stromal cells induces metabolic changes, enhances survival, and promotes cell retention in vivo. | Beegle J, Lakatos K, Kalomoiris S, Stewart H, Isseroff RR, Nolta JA, Fierro FA | Stem cells (Dayton, Ohio) | 25702874 | Stem Cells | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25702874 |
| Crosstalk between adrenergic and toll-like receptors in human mesenchymal stem cells and keratinocytes: a recipe for impaired wound healing. | Dasu MR, Ramirez SR, La TD, Gorouhi F, Nguyen C, Lin BR, Mashburn C, Stewart H, Peavy TR, Nolta JA, Isseroff RR | Stem cells translational medicine | 24760207 | Stem Cells Transl Med | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24760207 |
| Allele-Specific Reduction of the Mutant Huntingtin Allele Using Transcription Activator-Like Effectors in Human Huntington's Disease Fibroblasts. | Fink KD, Deng P, Gutierrez J, Anderson JS, Torrest A, Komarla A, Kalomoiris S, Cary W, Anderson JD, Gruenloh W, Duffy A, Tempkin T, Annett G, Wheelock V, Segal DJ, Nolta JA | Cell transplantation | 26850319 | Cell Transplant | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26850319 |
| Protective Effect of Intravitreal Administration of Exosomes Derived from Mesenchymal Stem Cells on Retinal Ischemia. | Moisseiev E, Anderson JD, Oltjen S, Goswami M, Zawadzki RJ, Nolta JA, Park SS | Current eye research | 28636406 | Curr Eye Res | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28636406 |
| Advances in bone marrow stem cell therapy for retinal dysfunction. | Park SS, Moisseiev E, Bauer G, Anderson JD, Grant MB, Zam A, Zawadzki RJ, Werner JS, Nolta JA | Progress in retinal and eye research | 27784628 | Prog Retin Eye Res | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27784628 |
| Mesenchymal stem/stromal cells genetically engineered to produce vascular endothelial growth factor for revascularization in wound healing and ischemic conditions. | Fierro FA, Magner N, Beegle J, Dahlenburg H, Logan White J, Zhou P, Pepper K, Fury B, Coleal-Bergum DP, Bauer G, Gruenloh W, Annett G, Pifer C, Nolta JA | Transfusion | 30383901 | Transfusion | 2019 Feb | https://www.ncbi.nlm.nih.gov/pubmed/30383901 |
| Primed mesenchymal stem cells package exosomes with metabolites associated with immunomodulation. | Showalter MR, Wancewicz B, Fiehn O, Archard JA, Clayton S, Wagner J, Deng P, Halmai J, Fink KD, Bauer G, Fury B, Perotti NH, Apperson M, Butters J, Belafsky P, Farwell G, Kuhn M, Nolta JA, Anderson JD | Biochemical and biophysical research communications | 30926165 | Biochem Biophys Res Commun | 2019 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/30926165 |
| Enhancing Retention of Human Bone Marrow Mesenchymal Stem Cells with Prosurvival Factors Promotes Angiogenesis in a Mouse Model of Limb Ischemia. | Cortez-Toledo E, Rose M, Agu E, Dahlenburg H, Yao W, Nolta JA, Zhou P | Stem cells and development | 30398391 | Stem Cells Dev | 2019 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/30398391 |
| Involvement of mesenchymal stem cells in cancer progression and metastases. | Chang AI, Schwertschkow AH, Nolta JA, Wu J | Current cancer drug targets | 25619387 | Curr Cancer Drug Targets | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25619387 |
| Mesenchymal Stem Cells Respond to Hypoxia by Increasing Diacylglycerols. | Lakatos K, Kalomoiris S, Merkely B, Nolta JA, Fierro FA | Journal of cellular biochemistry | 26212931 | J Cell Biochem | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26212931 |
| Engineered BDNF producing cells as a potential treatment for neurologic disease. | Deng P, Anderson JD, Yu AS, Annett G, Fink KD, Nolta JA | Expert opinion on biological therapy | 27159050 | Expert Opin Biol Ther | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27159050 |
| Novel Targeted Therapy for Precursor B Cell Acute Lymphoblastic Leukemia: anti-CD22 Antibody-MXD3 Antisense Oligonucleotide Conjugate. | Satake N, Duong C, Yoshida S, Oestergaard M, Chen C, Peralta R, Guo S, Seth PP, Li Y, Beckett L, Chung J, Nolta J, Nitin N, Tuscano JM | Molecular medicine (Cambridge, Mass.) | 27455414 | Mol Med | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27455414 |
| Coupling of mRNA Structure Rearrangement to Ribosome Movement during Bypassing of Non-coding Regions. | Chen J, Coakley A, O'Connor M, Petrov A, O'Leary SE, Atkins JF, Puglisi JD | Cell | 26590426 | Cell | 2015 Nov 19 | https://www.ncbi.nlm.nih.gov/pubmed/26590426 |
| A simple real-time assay for in vitro translation. | Capece MC, Kornberg GL, Petrov A, Puglisi JD | RNA (New York, N.Y.) | 25525154 | RNA | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25525154 |
| Unraveling the dynamics of ribosome translocation. | Chen J, Tsai A, O'Leary SE, Petrov A, Puglisi JD | Current opinion in structural biology | 23142574 | Curr Opin Struct Biol | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23142574 |
| Nonfluorescent quenchers to correlate single-molecule conformational and compositional dynamics. | Chen J, Tsai A, Petrov A, Puglisi JD | Journal of the American Chemical Society | 22428667 | J Am Chem Soc | 2012 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/22428667 |
| Dynamics of the translational machinery. | Petrov A, Kornberg G, O'Leary S, Tsai A, Uemura S, Puglisi JD | Current opinion in structural biology | 21256733 | Curr Opin Struct Biol | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21256733 |
| cis-Acting RNA elements in the hepatitis C virus RNA genome. | Sagan SM, Chahal J, Sarnow P | Virus research | 25576644 | Virus Res | 2015 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/25576644 |
| Real-time observation of signal recognition particle binding to actively translating ribosomes. | Noriega TR, Chen J, Walter P, Puglisi JD | eLife | 25358118 | Elife | 2014 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/25358118 |
| Kinetic pathway of 40S ribosomal subunit recruitment to hepatitis C virus internal ribosome entry site. | Fuchs G, Petrov AN, Marceau CD, Popov LM, Chen J, O'Leary SE, Wang R, Carette JE, Sarnow P, Puglisi JD | Proceedings of the National Academy of Sciences of the United States of America | 25516984 | Proc Natl Acad Sci U S A | 2015 Jan 13 | https://www.ncbi.nlm.nih.gov/pubmed/25516984 |
| Coordinated conformational and compositional dynamics drive ribosome translocation. | Chen J, Petrov A, Tsai A, O'Leary SE, Puglisi JD | Nature structural & molecular biology | 23624862 | Nat Struct Mol Biol | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23624862 |
| Multiple Parallel Pathways of Translation Initiation on the CrPV IRES. | Petrov A, Grosely R, Chen J, O'Leary SE, Puglisi JD | Molecular cell | 27058789 | Mol Cell | 2016 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/27058789 |
| Sequence-dependent elongation dynamics on macrolide-bound ribosomes. | Johansson M, Chen J, Tsai A, Kornberg G, Puglisi JD | Cell reports | 24836000 | Cell Rep | 2014 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/24836000 |
| Signal recognition particle-ribosome binding is sensitive to nascent chain length. | Noriega TR, Tsai A, Elvekrog MM, Petrov A, Neher SB, Chen J, Bradshaw N, Puglisi JD, Walter P | The Journal of biological chemistry | 24808175 | J Biol Chem | 2014 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/24808175 |
| Dynamic pathways of -1 translational frameshifting. | Chen J, Petrov A, Johansson M, Tsai A, O'Leary SE, Puglisi JD | Nature | 24919156 | Nature | 2014 Aug 21 | https://www.ncbi.nlm.nih.gov/pubmed/24919156 |
| Heterogeneous pathways and timing of factor departure during translation initiation. | Tsai A, Petrov A, Marshall RA, Korlach J, Uemura S, Puglisi JD | Nature | 22722848 | Nature | 2012 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/22722848 |
| High-throughput platform for real-time monitoring of biological processes by multicolor single-molecule fluorescence. | Chen J, Dalal RV, Petrov AN, Tsai A, O'Leary SE, Chapin K, Cheng J, Ewan M, Hsiung PL, Lundquist P, Turner SW, Hsu DR, Puglisi JD | Proceedings of the National Academy of Sciences of the United States of America | 24379388 | Proc Natl Acad Sci U S A | 2014 Jan 14 | https://www.ncbi.nlm.nih.gov/pubmed/24379388 |
| Post-termination Ribosome Intermediate Acts as the Gateway to Ribosome Recycling. | Prabhakar A, Capece MC, Petrov A, Choi J, Puglisi JD | Cell reports | 28683310 | Cell Rep | 2017 Jul 5 | https://www.ncbi.nlm.nih.gov/pubmed/28683310 |
| Single-molecule analysis of translational dynamics. | Petrov A, Chen J, O'Leary S, Tsai A, Puglisi JD | Cold Spring Harbor perspectives in biology | 22798542 | Cold Spring Harb Perspect Biol | 2012 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/22798542 |
| Amino acid sequence repertoire of the bacterial proteome and the occurrence of untranslatable sequences. | Navon SP, Kornberg G, Chen J, Schwartzman T, Tsai A, Puglisi EV, Puglisi JD, Adir N | Proceedings of the National Academy of Sciences of the United States of America | 27307442 | Proc Natl Acad Sci U S A | 2016 Jun 28 | https://www.ncbi.nlm.nih.gov/pubmed/27307442 |
| 2'-O-methylation in mRNA disrupts tRNA decoding during translation elongation. | Choi J, Indrisiunaite G, DeMirci H, Ieong KW, Wang J, Petrov A, Prabhakar A, Rechavi G, Dominissini D, He C, Ehrenberg M, Puglisi JD | Nature structural & molecular biology | 29459784 | Nat Struct Mol Biol | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29459784 |
| Cotranslational Protein Folding inside the Ribosome Exit Tunnel. | Nilsson OB, Hedman R, Marino J, Wickles S, Bischoff L, Johansson M, Müller-Lucks A, Trovato F, Puglisi JD, O'Brien EP, Beckmann R, von Heijne G | Cell reports | 26321634 | Cell Rep | 2015 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/26321634 |
| Dynamic recognition of the mRNA cap by Saccharomyces cerevisiae eIF4E. | O'Leary SE, Petrov A, Chen J, Puglisi JD | Structure (London, England : 1993) | 24183571 | Structure | 2013 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/24183571 |
| The dynamics of SecM-induced translational stalling. | Tsai A, Kornberg G, Johansson M, Chen J, Puglisi JD | Cell reports | 24836001 | Cell Rep | 2014 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/24836001 |
| The impact of aminoglycosides on the dynamics of translation elongation. | Tsai A, Uemura S, Johansson M, Puglisi EV, Marshall RA, Aitken CE, Korlach J, Ehrenberg M, Puglisi JD | Cell reports | 23416053 | Cell Rep | 2013 Feb 21 | https://www.ncbi.nlm.nih.gov/pubmed/23416053 |
| N(6)-methyladenosine in mRNA disrupts tRNA selection and translation-elongation dynamics. | Choi J, Ieong KW, Demirci H, Chen J, Petrov A, Prabhakar A, O'Leary SE, Dominissini D, Rechavi G, Soltis SM, Ehrenberg M, Puglisi JD | Nature structural & molecular biology | 26751643 | Nat Struct Mol Biol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26751643 |
| Natural Product Screening Reveals Naphthoquinone Complex I Bypass Factors. | Vafai SB, Mevers E, Higgins KW, Fomina Y, Zhang J, Mandinova A, Newman D, Shaw SY, Clardy J, Mootha VK | PloS one | 27622560 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27622560 |
| A genetically encoded tool for manipulation of NADP(+)/NADPH in living cells. | Cracan V, Titov DV, Shen H, Grabarek Z, Mootha VK | Nature chemical biology | 28805804 | Nat Chem Biol | 2017 Oct | https://www.ncbi.nlm.nih.gov/pubmed/28805804 |
| 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 |
| A natural fusion of flavodiiron, rubredoxin, and rubredoxin oxidoreductase domains is a self-sufficient water-forming oxidase of Trichomonas vaginalis. | Abdulaziz EN, Bell TA, Rashid B, Heacock ML, Begic T, Skinner OS, Yaseen MA, Chao LH, Mootha VK, Pierik AJ, Cracan V | The Journal of biological chemistry | 35780837 | J Biol Chem | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35780837 |
| Complementation of mitochondrial electron transport chain by manipulation of the NAD+/NADH ratio. | Titov DV, Cracan V, Goodman RP, Peng J, Grabarek Z, Mootha VK | Science (New York, N.Y.) | 27124460 | Science | 2016 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/27124460 |
| XRN 5'→3' exoribonucleases: structure, mechanisms and functions. | Nagarajan VK, Jones CI, Newbury SF, Green PJ | Biochimica et biophysica acta | 23517755 | Biochim Biophys Acta | 2013 Jun-Jul | https://www.ncbi.nlm.nih.gov/pubmed/23517755 |
| An miRNA Expression Signature for the Human Colonic Stem Cell Niche Distinguishes Malignant from Normal Epithelia. | Viswanathan V, Damle S, Zhang T, Opdenaker L, Modarai S, Accerbi M, Schmidt S, Green P, Galileo D, Palazzo J, Fields J, Haghighat S, Rigoutsos I, Gonye G, Boman BM | Cancer research | 28487386 | Cancer Res | 2017 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/28487386 |
| Identification of SMG6 cleavage sites and a preferred RNA cleavage motif by global analysis of endogenous NMD targets in human cells. | Schmidt SA, Foley PL, Jeong DH, Rymarquis LA, Doyle F, Tenenbaum SA, Belasco JG, Green PJ | Nucleic acids research | 25429978 | Nucleic Acids Res | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25429978 |
| Peptide design by optimization on a data-parameterized protein interaction landscape. | Jenson JM, Xue V, Stretz L, Mandal T, Reich LL, Keating AE | Proceedings of the National Academy of Sciences of the United States of America | 30322927 | Proc Natl Acad Sci U S A | 2018 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/30322927 |
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| Architecture of the fungal nuclear pore inner ring complex. | Stuwe T, Bley CJ, Thierbach K, Petrovic S, Schilbach S, Mayo DJ, Perriches T, Rundlet EJ, Jeon YE, Collins LN, Huber FM, Lin DH, Paduch M, Koide A, Lu V, Fischer J, Hurt E, Koide S, Kossiakoff AA, Hoelz A | Science (New York, N.Y.) | 26316600 | Science | 2015 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/26316600 |
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| Intein applications: from protein purification and labeling to metabolic control methods. | Wood DW, Camarero JA | The Journal of biological chemistry | 24700459 | J Biol Chem | 2014 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/24700459 |
| Legume cyclotides shed light on the genetic origin of knotted circular proteins. | Camarero JA | Proceedings of the National Academy of Sciences of the United States of America | 21653883 | Proc Natl Acad Sci U S A | 2011 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/21653883 |
| "Splicing up" drug discovery. Cell-based expression and screening of genetically-encoded libraries of backbone-cyclized polypeptides. | Sancheti H, Camarero JA | Advanced drug delivery reviews | 19628015 | Adv Drug Deliv Rev | 2009 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/19628015 |
| Cyclotides: Overview and Biotechnological Applications. | Gould A, Camarero JA | Chembiochem : a European journal of chemical biology | 28544675 | Chembiochem | 2017 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/28544675 |
| Protein Chemical Modification Inside Living Cells Using Split Inteins. | Borra R, Camarero JA | Methods in molecular biology (Clifton, N.J.) | 27714613 | Methods Mol Biol | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/27714613 |
| In-cell production of a genetically-encoded library based on the θ-defensin RTD-1 using a bacterial expression system. | Bi T, Li Y, Shekhtman A, Camarero JA | Bioorganic & medicinal chemistry | 28927803 | Bioorg Med Chem | 2018 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/28927803 |
| Expression of fluorescent cyclotides using protein trans-splicing for easy monitoring of cyclotide-protein interactions. | Jagadish K, Borra R, Lacey V, Majumder S, Shekhtman A, Wang L, Camarero JA | Angewandte Chemie (International ed. in English) | 23322720 | Angew Chem Int Ed Engl | 2013 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/23322720 |
| Design of a MCoTI-Based Cyclotide with Angiotensin (1-7)-Like Activity. | Aboye T, Meeks CJ, Majumder S, Shekhtman A, Rodgers K, Camarero JA | Molecules (Basel, Switzerland) | 26821010 | Molecules | 2016 Jan 26 | https://www.ncbi.nlm.nih.gov/pubmed/26821010 |
| Cellular uptake of cyclotide MCoTI-I follows multiple endocytic pathways. | Contreras J, Elnagar AY, Hamm-Alvarez SF, Camarero JA | Journal of controlled release : official journal of the Controlled Release Society | 21906641 | J Control Release | 2011 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/21906641 |
| Design of a novel cyclotide-based CXCR4 antagonist with anti-human immunodeficiency virus (HIV)-1 activity. | Aboye TL, Ha H, Majumder S, Christ F, Debyser Z, Shekhtman A, Neamati N, Camarero JA | Journal of medicinal chemistry | 23151033 | J Med Chem | 2012 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/23151033 |
| Protein microarrays: novel developments and applications. | Berrade L, Garcia AE, Camarero JA | Pharmaceutical research | 21116694 | Pharm Res | 2011 Jul | https://www.ncbi.nlm.nih.gov/pubmed/21116694 |
| Cyclotides, a promising molecular scaffold for peptide-based therapeutics. | Jagadish K, Camarero JA | Biopolymers | 20564025 | Biopolymers | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/20564025 |
| Efficient one-pot cyclization/folding of Rhesus θ-defensin-1 (RTD-1). | Aboye TL, Li Y, Majumder S, Hao J, Shekhtman A, Camarero JA | Bioorganic & medicinal chemistry letters | 22425570 | Bioorg Med Chem Lett | 2012 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/22425570 |
| Expressed protein ligation: a resourceful tool to study protein structure and function. | Berrade L, Camarero JA | Cellular and molecular life sciences : CMLS | 19685006 | Cell Mol Life Sci | 2009 Dec | https://www.ncbi.nlm.nih.gov/pubmed/19685006 |
| Biosynthesis and biological screening of a genetically encoded library based on the cyclotide MCoTI-I. | Austin J, Wang W, Puttamadappa S, Shekhtman A, Camarero JA | Chembiochem : a European journal of chemical biology | 19780078 | Chembiochem | 2009 Nov 2 | https://www.ncbi.nlm.nih.gov/pubmed/19780078 |
| Optimizing the future for biotechnology therapies, the key role of protein engineering. | Camarero JA | Advanced drug delivery reviews | 19735684 | Adv Drug Deliv Rev | 2009 Sep 30 | https://www.ncbi.nlm.nih.gov/pubmed/19735684 |
| Recombinant expression of backbone-cyclized polypeptides. | Borra R, Camarero JA | Biopolymers | 23893781 | Biopolymers | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23893781 |
| In vivo activation of the p53 tumor suppressor pathway by an engineered cyclotide. | Ji Y, Majumder S, Millard M, Borra R, Bi T, Elnagar AY, Neamati N, Shekhtman A, Camarero JA | Journal of the American Chemical Society | 23848581 | J Am Chem Soc | 2013 Aug 7 | https://www.ncbi.nlm.nih.gov/pubmed/23848581 |
| Changing the topology of protein backbone: the effect of backbone cyclization on the structure and dynamics of a SH3 domain. | Schumann FH, Varadan R, Tayakuniyil PP, Grossman JH, Camarero JA, Fushman D | Frontiers in chemistry | 25905098 | Front Chem | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25905098 |
| Full Sequence Amino Acid Scanning of θ-Defensin RTD-1 Yields a Potent Anthrax Lethal Factor Protease Inhibitor. | Li Y, Gould A, Aboye T, Bi T, Breindel L, Shekhtman A, Camarero JA | Journal of medicinal chemistry | 28151653 | J Med Chem | 2017 Mar 9 | https://www.ncbi.nlm.nih.gov/pubmed/28151653 |
| Chemical and biological production of cyclotides. | Li Y, Bi T, Camarero JA | Advances in botanical research | 27064329 | Adv Bot Res | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/27064329 |
| In vivo biosynthesis of an Ala-scan library based on the cyclic peptide SFTI-1. | Austin J, Kimura RH, Woo YH, Camarero JA | Amino acids | 19685144 | Amino Acids | 2010 May | https://www.ncbi.nlm.nih.gov/pubmed/19685144 |
| Biological activities of natural and engineered cyclotides, a novel molecular scaffold for peptide-based therapeutics. | Garcia AE, Camarero JA | Current molecular pharmacology | 20858197 | Curr Mol Pharmacol | 2010 Nov | https://www.ncbi.nlm.nih.gov/pubmed/20858197 |
| Recombinant production of rhesus θ-defensin-1 (RTD-1) using a bacterial expression system. | Gould A, Li Y, Majumder S, Garcia AE, Carlsson P, Shekhtman A, Camarero JA | Molecular bioSystems | 22327102 | Mol Biosyst | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22327102 |
| Cyclotides, a novel ultrastable polypeptide scaffold for drug discovery. | Gould A, Ji Y, Aboye TL, Camarero JA | Current pharmaceutical design | 22204428 | Curr Pharm Des | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22204428 |
| Insights into the molecular flexibility of θ-defensins by NMR relaxation analysis. | Conibear AC, Wang CK, Bi T, Rosengren KJ, Camarero JA, Craik DJ | The journal of physical chemistry. B | 25375365 | J Phys Chem B | 2014 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/25375365 |
| Rapid parallel synthesis of bioactive folded cyclotides by using a tea-bag approach. | Aboye T, Kuang Y, Neamati N, Camarero JA | Chembiochem : a European journal of chemical biology | 25663016 | Chembiochem | 2015 Mar 23 | https://www.ncbi.nlm.nih.gov/pubmed/25663016 |
| Recombinant Expression and Phenotypic Screening of a Bioactive Cyclotide Against α-Synuclein-Induced Cytotoxicity in Baker's Yeast. | Jagadish K, Gould A, Borra R, Majumder S, Mushtaq Z, Shekhtman A, Camarero JA | Angewandte Chemie (International ed. in English) | 26096948 | Angew Chem Int Ed Engl | 2015 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/26096948 |
| Efficient recombinant expression of SFTI-1 in bacterial cells using intein-mediated protein trans-splicing. | Li Y, Aboye T, Breindel L, Shekhtman A, Camarero JA | Biopolymers | 27178003 | Biopolymers | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27178003 |
| Self-assembled nanoplatform for targeted delivery of chemotherapy agents via affinity-regulated molecular interactions. | Park S, Kang S, Veach AJ, Vedvyas Y, Zarnegar R, Kim JY, Jin MM | Biomaterials | 20667589 | Biomaterials | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20667589 |
| Novel strategy for selection of monoclonal antibodies against highly conserved antigens: phage library panning against ephrin-B2 displayed on yeast. | Gu X, Vedvyas Y, Chen X, Kaushik T, Hwang CI, Hu X, Nikitin AY, Jin MM | PloS one | 22292016 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22292016 |
| Quantitative assessment of RNA-protein interactions with high-throughput sequencing-RNA affinity profiling. | Ozer A, Tome JM, Friedman RC, Gheba D, Schroth GP, Lis JT | Nature protocols | 26182240 | Nat Protoc | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26182240 |
| High-throughput binding characterization of RNA aptamer selections using a microplate-based multiplex microcolumn device. | Szeto K, Reinholt SJ, Duarte FM, Pagano JM, Ozer A, Yao L, Lis JT, Craighead HG | Analytical and bioanalytical chemistry | 24553662 | Anal Bioanal Chem | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24553662 |
| RAPID-SELEX for RNA aptamers. | Szeto K, Latulippe DR, Ozer A, Pagano JM, White BS, Shalloway D, Lis JT, Craighead HG | PloS one | 24376564 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24376564 |
| Comprehensive analysis of RNA-protein interactions by high-throughput sequencing-RNA affinity profiling. | Tome JM, Ozer A, Pagano JM, Gheba D, Schroth GP, Lis JT | Nature methods | 24809628 | Nat Methods | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24809628 |
| Cell surface assembly of HIV gp41 six-helix bundles for facile, quantitative measurements of hetero-oligomeric interactions. | Hu X, Saha P, Chen X, Kim D, Devarasetty M, Varadarajan R, Jin MM | Journal of the American Chemical Society | 22888993 | J Am Chem Soc | 2012 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/22888993 |
| Inflamed leukocyte-mimetic nanoparticles for molecular imaging of inflammation. | Chen X, Wong R, Khalidov I, Wang AY, Leelawattanachai J, Wang Y, Jin MM | Biomaterials | 21783245 | Biomaterials | 2011 Oct | https://www.ncbi.nlm.nih.gov/pubmed/21783245 |
| New Technologies Provide Quantum Changes in the Scale, Speed, and Success of SELEX Methods and Aptamer Characterization. | Ozer A, Pagano JM, Lis JT | Molecular therapy. Nucleic acids | 25093707 | Mol Ther Nucleic Acids | 2014 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/25093707 |
| Multiplexed microcolumn-based process for efficient selection of RNA aptamers. | Latulippe DR, Szeto K, Ozer A, Duarte FM, Kelly CV, Pagano JM, White BS, Shalloway D, Lis JT, Craighead HG | Analytical chemistry | 23398198 | Anal Chem | 2013 Mar 19 | https://www.ncbi.nlm.nih.gov/pubmed/23398198 |
| Density-dependent cooperative non-specific binding in solid-phase SELEX affinity selection. | Ozer A, White BS, Lis JT, Shalloway D | Nucleic acids research | 23737446 | Nucleic Acids Res | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23737446 |
| Highly Multiplexed RNA Aptamer Selection using a Microplate-based Microcolumn Device. | Reinholt SJ, Ozer A, Lis JT, Craighead HG | Scientific reports | 27432610 | Sci Rep | 2016 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/27432610 |
| Discovering aptamers by cell-SELEX against human soluble growth factors ectopically expressed on yeast cell surface. | Meng HW, Pagano JM, White BS, Toyoda Y, Min IM, Craighead HG, Shalloway D, Lis JT, Xiao K, Jin MM | PloS one | 24675636 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24675636 |
| Defining NELF-E RNA binding in HIV-1 and promoter-proximal pause regions. | Pagano JM, Kwak H, Waters CT, Sprouse RO, White BS, Ozer A, Szeto K, Shalloway D, Craighead HG, Lis JT | PLoS genetics | 24453987 | PLoS Genet | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24453987 |
| Structural basis for conformational switching and GTP loading of the large G protein atlastin. | Byrnes LJ, Singh A, Szeto K, Benvin NM, O'Donnell JP, Zipfel WR, Sondermann H | The EMBO journal | 23334294 | EMBO J | 2013 Feb 6 | https://www.ncbi.nlm.nih.gov/pubmed/23334294 |
| Myosin II controls cellular branching morphogenesis and migration in three dimensions by minimizing cell-surface curvature. | Elliott H, Fischer RS, Myers KA, Desai RA, Gao L, Chen CS, Adelstein RS, Waterman CM, Danuser G | Nature cell biology | 25621949 | Nat Cell Biol | 2015 Feb | https://www.ncbi.nlm.nih.gov/pubmed/25621949 |
| FRET binding antenna reports spatiotemporal dynamics of GDI-Cdc42 GTPase interactions. | Hodgson L, Spiering D, Sabouri-Ghomi M, Dagliyan O, DerMardirossian C, Danuser G, Hahn KM | Nature chemical biology | 27501396 | Nat Chem Biol | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27501396 |
| Fluctuation-based imaging of nuclear Rac1 activation by protein oligomerisation. | Hinde E, Yokomori K, Gaus K, Hahn KM, Gratton E | Scientific reports | 24573109 | Sci Rep | 2014 Feb 27 | https://www.ncbi.nlm.nih.gov/pubmed/24573109 |
| What's wrong with correlative experiments? | Vilela M, Danuser G | Nature cell biology | 21892139 | Nat Cell Biol | 2011 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/21892139 |
| Millisecond spatiotemporal dynamics of FRET biosensors by the pair correlation function and the phasor approach to FLIM. | Hinde E, Digman MA, Hahn KM, Gratton E | Proceedings of the National Academy of Sciences of the United States of America | 23248275 | Proc Natl Acad Sci U S A | 2013 Jan 2 | https://www.ncbi.nlm.nih.gov/pubmed/23248275 |
| Knowledge-based design of a biosensor to quantify localized ERK activation in living cells. | Kummer L, Hsu CW, Dagliyan O, MacNevin C, Kaufholz M, Zimmermann B, Dokholyan NV, Hahn KM, Plückthun A | Chemistry & biology | 23790495 | Chem Biol | 2013 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/23790495 |
| Delivery of membrane impermeable cargo into CHO cells by peptide nanoparticles targeted by a protein corona. | Dittrich C, Burckhardt CJ, Danuser G | Biomaterials | 22226586 | Biomaterials | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22226586 |
| A RhoC biosensor reveals differences in the activation kinetics of RhoA and RhoC in migrating cells. | Zawistowski JS, Sabouri-Ghomi M, Danuser G, Hahn KM, Hodgson L | PloS one | 24224016 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24224016 |
| LOVTRAP: an optogenetic system for photoinduced protein dissociation. | Wang H, Vilela M, Winkler A, Tarnawski M, Schlichting I, Yumerefendi H, Kuhlman B, Liu R, Danuser G, Hahn KM | Nature methods | 27427858 | Nat Methods | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27427858 |
| Fluctuation analysis of activity biosensor images for the study of information flow in signaling pathways. | Vilela M, Halidi N, Besson S, Elliott H, Hahn K, Tytell J, Danuser G | Methods in enzymology | 23280114 | Methods Enzymol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23280114 |
| Manipulation of endogenous kinase activity in living cells using photoswitchable inhibitory peptides. | Yi JJ, Wang H, Vilela M, Danuser G, Hahn KM | ACS synthetic biology | 24905630 | ACS Synth Biol | 2014 Nov 21 | https://www.ncbi.nlm.nih.gov/pubmed/24905630 |
| Imaging the coordination of multiple signalling activities in living cells. | Welch CM, Elliott H, Danuser G, Hahn KM | Nature reviews. Molecular cell biology | 22016058 | Nat Rev Mol Cell Biol | 2011 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/22016058 |
| Humanin, a cytoprotective peptide, is expressed in carotid atherosclerotic [corrected] plaques in humans. | Zacharias DG, Kim SG, Massat AE, Bachar AR, Oh YK, Herrmann J, Rodriguez-Porcel M, Cohen P, Lerman LO, Lerman A | PloS one | 22328926 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22328926 |
| Naturally occurring mitochondrial-derived peptides are age-dependent regulators of apoptosis, insulin sensitivity, and inflammatory markers. | Cobb LJ, Lee C, Xiao J, Yen K, Wong RG, Nakamura HK, Mehta HH, Gao Q, Ashur C, Huffman DM, Wan J, Muzumdar R, Barzilai N, Cohen P | Aging | 27070352 | Aging (Albany NY) | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27070352 |
| International collaboration: promises and challenges. | Widmer RJ, Widmer JM, Lerman A | Rambam Maimonides medical journal | 25973264 | Rambam Maimonides Med J | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25973264 |
| Pharmacokinetics and tissue distribution of humanin and its analogues in male rodents. | Chin YP, Keni J, Wan J, Mehta H, Anene F, Jia Y, Lue YH, Swerdloff R, Cobb LJ, Wang C, Cohen P | Endocrinology | 23836030 | Endocrinology | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23836030 |
| Humanin: a harbinger of mitochondrial-derived peptides? | Lee C, Yen K, Cohen P | Trends in endocrinology and metabolism: TEM | 23402768 | Trends Endocrinol Metab | 2013 May | https://www.ncbi.nlm.nih.gov/pubmed/23402768 |
| The emerging role of the mitochondrial-derived peptide humanin in stress resistance. | Yen K, Lee C, Mehta H, Cohen P | Journal of molecular endocrinology | 23239898 | J Mol Endocrinol | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23239898 |
| The cytoprotective peptide humanin is induced and neutralizes Bax after pro-apoptotic stress in the rat testis. | Jia Y, Lue YH, Swerdloff R, Lee KW, Cobb LJ, Cohen P, Wang C | Andrology | 23686888 | Andrology | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23686888 |
| Effects of Sex, Strain, and Energy Intake on Hallmarks of Aging in Mice. | Mitchell SJ, Madrigal-Matute J, Scheibye-Knudsen M, Fang E, Aon M, González-Reyes JA, Cortassa S, Kaushik S, Gonzalez-Freire M, Patel B, Wahl D, Ali A, Calvo-Rubio M, Burón MI, Guiterrez V, Ward TM, Palacios HH, Cai H, Frederick DW, Hine C, Broeskamp F, Habering L, Dawson J, Beasley TM, Wan J, Ikeno Y, Hubbard G, Becker KG, Zhang Y, Bohr VA, Longo DL, Navas P, Ferrucci L, Sinclair DA, Cohen P, Egan JM, Mitchell JR, Baur JA, Allison DB, Anson RM, Villalba JM, Madeo F, Cuervo AM, Pearson KJ, Ingram DK, Bernier M, de Cabo R | Cell metabolism | 27304509 | Cell Metab | 2016 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/27304509 |
| The Mitochondrial-Derived Peptide Humanin Protects RPE Cells From Oxidative Stress, Senescence, and Mitochondrial Dysfunction. | Sreekumar PG, Ishikawa K, Spee C, Mehta HH, Wan J, Yen K, Cohen P, Kannan R, Hinton DR | Investigative ophthalmology & visual science | 26990160 | Invest Ophthalmol Vis Sci | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26990160 |
| Humanin preserves endothelial function and prevents atherosclerotic plaque progression in hypercholesterolemic ApoE deficient mice. | Oh YK, Bachar AR, Zacharias DG, Kim SG, Wan J, Cobb LJ, Lerman LO, Cohen P, Lerman A | Atherosclerosis | 21763658 | Atherosclerosis | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21763658 |
| IGF-I regulates the age-dependent signaling peptide humanin. | Lee C, Wan J, Miyazaki B, Fang Y, Guevara-Aguirre J, Yen K, Longo V, Bartke A, Cohen P | Aging cell | 25040290 | Aging Cell | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25040290 |
| Subcellular Fractionation for ERK Activation Upon Mitochondrial-derived Peptide Treatment. | Kim SJ, Xiao J, Cohen P, Yen K | Journal of visualized experiments : JoVE | 28994791 | J Vis Exp | 2017 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/28994791 |
| Humanin prevents intra-renal microvascular remodeling and inflammation in hypercholesterolemic ApoE deficient mice. | Zhang X, Urbieta-Caceres VH, Eirin A, Bell CC, Crane JA, Tang H, Jordan KL, Oh YK, Zhu XY, Korsmo MJ, Bachar AR, Cohen P, Lerman A, Lerman LO | Life sciences | 22820173 | Life Sci | 2012 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/22820173 |
| Humanin: Functional Interfaces with IGF-I. | Xiao J, Kim SJ, Cohen P, Yen K | Growth hormone & IGF research : official journal of the Growth Hormone Research Society and the International IGF Research Society | 27082450 | Growth Horm IGF Res | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27082450 |
| MOTS-c: A novel mitochondrial-derived peptide regulating muscle and fat metabolism. | Lee C, Kim KH, Cohen P | Free radical biology & medicine | 27216708 | Free Radic Biol Med | 2016 Nov | https://www.ncbi.nlm.nih.gov/pubmed/27216708 |
| The association between circulating microRNA levels and coronary endothelial function. | Widmer RJ, Chung WY, Herrmann J, Jordan KL, Lerman LO, Lerman A | PloS one | 25310838 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25310838 |
| The Potent Humanin Analogue (HNG) Protects Germ Cells and Leucocytes While Enhancing Chemotherapy-Induced Suppression of Cancer Metastases in Male Mice. | Lue Y, Swerdloff R, Wan J, Xiao J, French S, Atienza V, Canela V, Bruhn KW, Stone B, Jia Y, Cohen P, Wang C | Endocrinology | 26384090 | Endocrinology | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26384090 |
| New role for the mitochondrial peptide humanin: protective agent against chemotherapy-induced side effects. | Cohen P | Journal of the National Cancer Institute | 24586106 | J Natl Cancer Inst | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24586106 |
| Circulating humanin levels are associated with preserved coronary endothelial function. | Widmer RJ, Flammer AJ, Herrmann J, Rodriguez-Porcel M, Wan J, Cohen P, Lerman LO, Lerman A | American journal of physiology. Heart and circulatory physiology | 23220334 | Am J Physiol Heart Circ Physiol | 2013 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/23220334 |
| Central insulin-like growth factor-1 (IGF-1) restores whole-body insulin action in a model of age-related insulin resistance and IGF-1 decline. | Huffman DM, Farias Quipildor G, Mao K, Zhang X, Wan J, Apontes P, Cohen P, Barzilai N | Aging cell | 26534869 | Aging Cell | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26534869 |
| The mitochondrial-derived peptide MOTS-c promotes metabolic homeostasis and reduces obesity and insulin resistance. | Lee C, Zeng J, Drew BG, Sallam T, Martin-Montalvo A, Wan J, Kim SJ, Mehta H, Hevener AL, de Cabo R, Cohen P | Cell metabolism | 25738459 | Cell Metab | 2015 Mar 3 | https://www.ncbi.nlm.nih.gov/pubmed/25738459 |
| Late-life targeting of the IGF-1 receptor improves healthspan and lifespan in female mice. | Mao K, Quipildor GF, Tabrizian T, Novaj A, Guan F, Walters RO, Delahaye F, Hubbard GB, Ikeno Y, Ejima K, Li P, Allison DB, Salimi-Moosavi H, Beltran PJ, Cohen P, Barzilai N, Huffman DM | Nature communications | 29921922 | Nat Commun | 2018 Jun 19 | https://www.ncbi.nlm.nih.gov/pubmed/29921922 |
| The effects of humanin and its analogues on male germ cell apoptosis induced by chemotherapeutic drugs. | Jia Y, Ohanyan A, Lue YH, Swerdloff RS, Liu PY, Cohen P, Wang C | Apoptosis : an international journal on programmed cell death | 25666707 | Apoptosis | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25666707 |
| Rat Humanin is encoded and translated in mitochondria and is localized to the mitochondrial compartment where it regulates ROS production. | Paharkova V, Alvarez G, Nakamura H, Cohen P, Lee KW | Molecular and cellular endocrinology | 26116236 | Mol Cell Endocrinol | 2015 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/26116236 |
| The mitochondrial-derived peptide humanin activates the ERK1/2, AKT, and STAT3 signaling pathways and has age-dependent signaling differences in the hippocampus. | Kim SJ, Guerrero N, Wassef G, Xiao J, Mehta HH, Cohen P, Yen K | Oncotarget | 27384491 | Oncotarget | 2016 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/27384491 |
| Requirement of argininosuccinate lyase for systemic nitric oxide production. | Erez A, Nagamani SC, Shchelochkov OA, Premkumar MH, Campeau PM, Chen Y, Garg HK, Li L, Mian A, Bertin TK, Black JO, Zeng H, Tang Y, Reddy AK, Summar M, O'Brien WE, Harrison DG, Mitch WE, Marini JC, Aschner JL, Bryan NS, Lee B | Nature medicine | 22081021 | Nat Med | 2011 Nov 13 | https://www.ncbi.nlm.nih.gov/pubmed/22081021 |
| Argininosuccinate lyase deficiency-argininosuccinic aciduria and beyond. | Erez A, Nagamani SC, Lee B | American journal of medical genetics. Part C, Seminars in medical genetics | 21312326 | Am J Med Genet C Semin Med Genet | 2011 Feb 15 | https://www.ncbi.nlm.nih.gov/pubmed/21312326 |
| Argininosuccinate lyase deficiency. | Nagamani SC, Erez A, Lee B | Genetics in medicine : official journal of the American College of Medical Genetics | 22241104 | Genet Med | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22241104 |
| Concentration- and stage-specific effects of nitrite on colon cancer cell lines. | Jiang H, Tang Y, Garg HK, Parthasarathy DK, Torregrossa AC, Hord NG, Bryan NS | Nitric oxide : biology and chemistry | 22504070 | Nitric Oxide | 2012 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/22504070 |
| Systemic hypertension in two patients with ASL deficiency: a result of nitric oxide deficiency? | Brunetti-Pierri N, Erez A, Shchelochkov O, Craigen W, Lee B | Molecular genetics and metabolism | 19592285 | Mol Genet Metab | 2009 Sep-Oct | https://www.ncbi.nlm.nih.gov/pubmed/19592285 |
| Optimizing therapy for argininosuccinic aciduria. | Nagamani SC, Lee B, Erez A | Molecular genetics and metabolism | 22841516 | Mol Genet Metab | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22841516 |
| Insights into the pathogenesis and treatment of cancer from inborn errors of metabolism. | Erez A, Shchelochkov OA, Plon SE, Scaglia F, Lee B | American journal of human genetics | 21473982 | Am J Hum Genet | 2011 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/21473982 |
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| An essential role of the cysteine-rich domain of FZD4 in Norrin/Wnt signaling and familial exudative vitreoretinopathy. | Zhang K, Harada Y, Wei X, Shukla D, Rajendran A, Tawansy K, Bedell M, Lim S, Shaw PX, He X, Yang Z | The Journal of biological chemistry | 21177847 | J Biol Chem | 2011 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/21177847 |
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| Four additional natural 7-deazaguanine derivatives in phages and how to make them. | Cui L, Balamkundu S, Liu CF, Ye H, Hourihan J, Rausch A, Hauß C, Nilsson E, Hoetzinger M, Holmfeldt K, Zhang W, Martinez-Alvarez L, Peng X, Tremblay D, Moinau S, Solonenko N, Sullivan MB, Lee YJ, Mulholland A, Weigele PR, de Crécy-Lagard V, Dedon PC, Hutinet G | Nucleic acids research | 37572349 | Nucleic Acids Res | 2023 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/37572349 |
| Phosphorothioate DNA modification by BREX Type 4 systems in the human gut microbiome. | Yuan Y, DeMott MS, Byrne SR, Flores K, Poyet M, Groussin M, Microbiome Conservancy G, Berdy B, Comstock L, Alm EJ, Dedon PC | bioRxiv : the preprint server for biology | 38895356 | bioRxiv | 2024 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/38895356 |
| Nick-seq for single-nucleotide resolution genomic maps of DNA modifications and damage. | Cao B, Wu X, Zhou J, Wu H, Liu L, Zhang Q, DeMott MS, Gu C, Wang L, You D, Dedon PC | Nucleic acids research | 32484547 | Nucleic Acids Res | 2020 Jul 9 | https://www.ncbi.nlm.nih.gov/pubmed/32484547 |
| PT-seq: A method for metagenomic analysis of phosphorothioate epigenetics in complex microbial communities. | Yuan Y, DeMott MS, Byrne SR, Global Microbiome Conservancy, Dedon PC | bioRxiv : the preprint server for biology | 38895297 | bioRxiv | 2024 Jun 3 | https://www.ncbi.nlm.nih.gov/pubmed/38895297 |
| Protein Domain Guided Screen for Sequence Specific and Phosphorothioate-Dependent Restriction Endonucleases. | Lutz T, Czapinska H, Fomenkov A, Potapov V, Heiter DF, Cao B, Dedon P, Bochtler M, Xu SY | Frontiers in microbiology | 33013736 | Front Microbiol | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/33013736 |
| Strategies to Avoid Artifacts in Mass Spectrometry-Based Epitranscriptome Analyses. | Kaiser S, Byrne SR, Ammann G, Asadi Atoi P, Borland K, Brecheisen R, DeMott MS, Gehrke T, Hagelskamp F, Heiss M, Yoluç Y, Liu L, Zhang Q, Dedon PC, Cao B, Kellner S | Angewandte Chemie (International ed. in English) | 34339593 | Angew Chem Int Ed Engl | 2021 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/34339593 |
| Temporal dynamics and metagenomics of phosphorothioate epigenomes in the human gut microbiome. | Byrne SR, DeMott MS, Yuan Y, Ghanegolmohammadi F, Kaiser S, Fox JG, Alm EJ, Dedon PC | Microbiome | 40128848 | Microbiome | 2025 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/40128848 |
| tRNA modification profiling reveals epitranscriptome regulatory networks in Pseudomonas aeruginosa. | Sun J, Wu J, Yuan Y, Fan L, Chua WLP, Ling YHS, Balamkundu S, Priya D, Suen HCS, de Crécy-Lagard V, Dziergowska A, Dedon PC | bioRxiv : the preprint server for biology | 39005467 | bioRxiv | 2024 Jul 2 | https://www.ncbi.nlm.nih.gov/pubmed/39005467 |
| The role of environmental exposures and the epigenome in health and disease. | Perera BPU, Faulk C, Svoboda LK, Goodrich JM, Dolinoy DC | Environmental and molecular mutagenesis | 31177562 | Environ Mol Mutagen | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31177562 |
| Paradoxical whole genome DNA methylation dynamics of 5'aza-deoxycytidine in chronic low-dose exposure in mice. | Colwell M, Wanner NM, Drown C, Drown M, Dolinoy DC, Faulk C | Epigenetics | 32619143 | Epigenetics | 2021 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/32619143 |
| The evolution of CpG density and lifespan in conserved primate and mammalian promoters. | McLain AT, Faulk C | Aging | 29661983 | Aging (Albany NY) | 2018 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/29661983 |
| Genomic Tools for Environmental Epigenetics and Implications for Public Health. | Perera BPU, Svoboda L, Dolinoy DC | Current opinion in toxicology | 31763499 | Curr Opin Toxicol | 2019 Dec | https://www.ncbi.nlm.nih.gov/pubmed/31763499 |
| Evolutionary conservation of DNA methylation in CpG sites within ultraconserved noncoding elements. | Colwell M, Drown M, Showel K, Drown C, Palowski A, Faulk C | Epigenetics | 29372669 | Epigenetics | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29372669 |
| Somatic expression of piRNA and associated machinery in the mouse identifies short, tissue-specific piRNA. | Perera BPU, Tsai ZT, Colwell ML, Jones TR, Goodrich JM, Wang K, Sartor MA, Faulk C, Dolinoy DC | Epigenetics | 30955436 | Epigenetics | 2019 May | https://www.ncbi.nlm.nih.gov/pubmed/30955436 |
| piOxi database: a web resource of germline and somatic tissue piRNAs identified by chemical oxidation. | Wang K, Perera BPU, Morgan RK, Sala-Hamrick K, Geron V, Svoboda LK, Faulk C, Dolinoy DC, Sartor MA | Database : the journal of biological databases and curation | 38204359 | Database (Oxford) | 2024 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/38204359 |
| Comparison of toxicogenomics and traditional approaches to inform mode of action and points of departure in human health risk assessment of benzo[a]pyrene in drinking water. | Moffat I, Chepelev N, Labib S, Bourdon-Lacombe J, Kuo B, Buick JK, Lemieux F, Williams A, Halappanavar S, Malik A, Luijten M, Aubrecht J, Hyduke DR, Fornace AJ Jr, Swartz CD, Recio L, Yauk CL | Critical reviews in toxicology | 25605026 | Crit Rev Toxicol | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25605026 |
| The human toxome project. | Bouhifd M, Andersen ME, Baghdikian C, Boekelheide K, Crofton KM, Fornace AJ Jr, Kleensang A, Li H, Livi C, Maertens A, McMullen PD, Rosenberg M, Thomas R, Vantangoli M, Yager JD, Zhao L, Hartung T | ALTEX | 25742299 | ALTEX | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25742299 |
| Exploring new technologies in biomedical research. | Benam KH, Gilchrist S, Kleensang A, Satz AB, Willett C, Zhang Q | Drug discovery today | 30953865 | Drug Discov Today | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/30953865 |
| Metabolomics in toxicology and preclinical research. | Ramirez T, Daneshian M, Kamp H, Bois FY, Clench MR, Coen M, Donley B, Fischer SM, Ekman DR, Fabian E, Guillou C, Heuer J, Hogberg HT, Jungnickel H, Keun HC, Krennrich G, Krupp E, Luch A, Noor F, Peter E, Riefke B, Seymour M, Skinner N, Smirnova L, Verheij E, Wagner S, Hartung T, van Ravenzwaay B, Leist M | ALTEX | 23665807 | ALTEX | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23665807 |
| Mapping the human toxome by systems toxicology. | Bouhifd M, Hogberg HT, Kleensang A, Maertens A, Zhao L, Hartung T | Basic & clinical pharmacology & toxicology | 24443875 | Basic Clin Pharmacol Toxicol | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24443875 |
| Genetic variability in a frozen batch of MCF-7 cells invisible in routine authentication affecting cell function. | Kleensang A, Vantangoli MM, Odwin-DaCosta S, Andersen ME, Boekelheide K, Bouhifd M, Fornace AJ Jr, Li HH, Livi CB, Madnick S, Maertens A, Rosenberg M, Yager JD, Zhao L, Hartung T | Scientific reports | 27456714 | Sci Rep | 2016 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/27456714 |
| Transcriptional and metabolic adaptation of human neurons to the mitochondrial toxicant MPP(+). | Krug AK, Gutbier S, Zhao L, Pöltl D, Kullmann C, Ivanova V, Förster S, Jagtap S, Meiser J, Leparc G, Schildknecht S, Adam M, Hiller K, Farhan H, Brunner T, Hartung T, Sachinidis A, Leist M | Cell death & disease | 24810058 | Cell Death Dis | 2014 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/24810058 |
| The Human Toxome Collaboratorium: A Shared Environment for Multi-Omic Computational Collaboration within a Consortium. | Fasani RA, Livi CB, Choudhury DR, Kleensang A, Bouhifd M, Pendse SN, McMullen PD, Andersen ME, Hartung T, Rosenberg M | Frontiers in pharmacology | 26924983 | Front Pharmacol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26924983 |
| Metabolomic network analysis of estrogen-stimulated MCF-7 cells: a comparison of overrepresentation analysis, quantitative enrichment analysis and pathway analysis versus metabolite network analysis. | Maertens A, Bouhifd M, Zhao L, Odwin-DaCosta S, Kleensang A, Yager JD, Hartung T | Archives of toxicology | 27039105 | Arch Toxicol | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27039105 |
| 3D - a new dimension of in vitro research. | Hartung T | Advanced drug delivery reviews | 24721291 | Adv Drug Deliv Rev | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24721291 |
| Systems Toxicology: Real World Applications and Opportunities. | Hartung T, FitzGerald RE, Jennings P, Mirams GR, Peitsch MC, Rostami-Hodjegan A, Shah I, Wilks MF, Sturla SJ | Chemical research in toxicology | 28362102 | Chem Res Toxicol | 2017 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/28362102 |
| Immunotoxicology: challenges in the 21st century and in vitro opportunities. | Hartung T, Corsini E | ALTEX | 24173166 | ALTEX | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/24173166 |
| Integration of metabolic activation with a predictive toxicogenomics signature to classify genotoxic versus nongenotoxic chemicals in human TK6 cells. | Buick JK, Moffat I, Williams A, Swartz CD, Recio L, Hyduke DR, Li HH, Fornace AJ Jr, Aubrecht J, Yauk CL | Environmental and molecular mutagenesis | 25733247 | Environ Mol Mutagen | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25733247 |
| Development of a toxicogenomics signature for genotoxicity using a dose-optimization and informatics strategy in human cells. | Li HH, Hyduke DR, Chen R, Heard P, Yauk CL, Aubrecht J, Fornace AJ Jr | Environmental and molecular mutagenesis | 25733355 | Environ Mol Mutagen | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25733355 |
| Arsenite and cadmium promote the development of mammary tumors. | Divekar SD, Li HH, Parodi DA, Ghafouri TB, Chen R, Cyrus K, Foxworth AE, Fornace AJ, Byrne C, Martin MB | Carcinogenesis | 31646340 | Carcinogenesis | 2020 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/31646340 |
| Review: toxicometabolomics. | Bouhifd M, Hartung T, Hogberg HT, Kleensang A, Zhao L | Journal of applied toxicology : JAT | 23722930 | J Appl Toxicol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/23722930 |
| Integrated testing strategies for safety assessments. | Hartung T, Luechtefeld T, Maertens A, Kleensang A | ALTEX | 23338803 | ALTEX | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23338803 |
| Ultrasensitive response motifs: basic amplifiers in molecular signalling networks. | Zhang Q, Bhattacharya S, Andersen ME | Open biology | 23615029 | Open Biol | 2013 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/23615029 |
| Estradiol Exposure Differentially Alters Monolayer versus Microtissue MCF-7 Human Breast Carcinoma Cultures. | Vantangoli MM, Madnick SJ, Wilson S, Boekelheide K | PloS one | 27379522 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27379522 |
| Application of the TGx-28.65 transcriptomic biomarker to classify genotoxic and non-genotoxic chemicals in human TK6 cells in the presence of rat liver S9. | Yauk CL, Buick JK, Williams A, Swartz CD, Recio L, Li HH, Fornace AJ Jr, Thomson EM, Aubrecht J | Environmental and molecular mutagenesis | 26946220 | Environ Mol Mutagen | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26946220 |
| Morphologic effects of estrogen stimulation on 3D MCF-7 microtissues. | Vantangoli MM, Wilson S, Madnick SJ, Huse SM, Boekelheide K | Toxicology letters | 26921789 | Toxicol Lett | 2016 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/26921789 |
| 21st Century Cell Culture for 21st Century Toxicology. | Pamies D, Hartung T | Chemical research in toxicology | 28092941 | Chem Res Toxicol | 2017 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/28092941 |
| Pathways of Toxicity. | Kleensang A, Maertens A, Rosenberg M, Fitzpatrick S, Lamb J, Auerbach S, Brennan R, Crofton KM, Gordon B, Fornace AJ Jr, Gaido K, Gerhold D, Haw R, Henney A, Ma'ayan A, McBride M, Monti S, Ochs MF, Pandey A, Sharan R, Stierum R, Tugendreich S, Willett C, Wittwehr C, Xia J, Patton GW, Arvidson K, Bouhifd M, Hogberg HT, Luechtefeld T, Smirnova L, Zhao L, Adeleye Y, Kanehisa M, Carmichael P, Andersen ME, Hartung T | ALTEX | 24127042 | ALTEX | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24127042 |
| Look back in anger - what clinical studies tell us about preclinical work. | Hartung T | ALTEX | 23861075 | ALTEX | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23861075 |
| Systems Toxicology: The Future of Risk Assessment. | Sauer JM, Hartung T, Leist M, Knudsen TB, Hoeng J, Hayes AW | International journal of toxicology | 25804424 | Int J Toxicol | 2015 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/25804424 |
| MPTP's pathway of toxicity indicates central role of transcription factor SP1. | Maertens A, Luechtefeld T, Kleensang A, Hartung T | Archives of toxicology | 25851821 | Arch Toxicol | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25851821 |
| Development and validation of a high-throughput transcriptomic biomarker to address 21st century genetic toxicology needs. | Li HH, Chen R, Hyduke DR, Williams A, Frötschl R, Ellinger-Ziegelbauer H, O'Lone R, Yauk CL, Aubrecht J, Fornace AJ Jr | Proceedings of the National Academy of Sciences of the United States of America | 29203651 | Proc Natl Acad Sci U S A | 2017 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/29203651 |
| Information-dependent enrichment analysis reveals time-dependent transcriptional regulation of the estrogen pathway of toxicity. | Pendse SN, Maertens A, Rosenberg M, Roy D, Fasani RA, Vantangoli MM, Madnick SJ, Boekelheide K, Fornace AJ, Odwin SA, Yager JD, Hartung T, Andersen ME, McMullen PD | Archives of toxicology | 27592001 | Arch Toxicol | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27592001 |
| Mechanistic validation. | Hartung T, Hoffmann S, Stephens M | ALTEX | 23665802 | ALTEX | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23665802 |
| Quality assurance of metabolomics. | Bouhifd M, Beger R, Flynn T, Guo L, Harris G, Hogberg H, Kaddurah-Daouk R, Kamp H, Kleensang A, Maertens A, Odwin-DaCosta S, Pamies D, Robertson D, Smirnova L, Sun J, Zhao L, Hartung T | ALTEX | 26536290 | ALTEX | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26536290 |
| Perspectives on In Vitro to In Vivo Extrapolations. | Hartung T | Applied in vitro toxicology | 31890748 | Appl In Vitro Toxicol | 2018 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/31890748 |
| Organophosphorus flame retardants are developmental neurotoxicants in a rat primary brainsphere in vitro model. | Hogberg HT, de Cássia da Silveira E Sá R, Kleensang A, Bouhifd M, Cemiloglu Ulker O, Smirnova L, Behl M, Maertens A, Zhao L, Hartung T | Archives of toxicology | 33078273 | Arch Toxicol | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33078273 |
| MCF-7 Human Breast Cancer Cells Form Differentiated Microtissues in Scaffold-Free Hydrogels. | Vantangoli MM, Madnick SJ, Huse SM, Weston P, Boekelheide K | PloS one | 26267486 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26267486 |
| Joint Bounding of Peaks Across Samples Improves Differential Analysis in Mass Spectrometry-Based Metabolomics. | Myint L, Kleensang A, Zhao L, Hartung T, Hansen KD | Analytical chemistry | 28221771 | Anal Chem | 2017 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/28221771 |
| CAR-T Entering a New "Phase": Improving CAR-T Function by Harnessing Phase Separation. | Su X | Cancer research | 39879116 | Cancer Res | 2025 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/39879116 |
| Hyperactive PLCG1 drives non-canonical signaling to promote cell survival. | Zeng L, Zhang X, Xiong Y, Sato K, Hajicek N, Sondek J, Su X | bioRxiv : the preprint server for biology | 39763946 | bioRxiv | 2024 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/39763946 |
| Overcoming fixation and permeabilization challenges in flow cytometry by optical barcoding and multi-pass acquisition. | Fahlberg MD, Forward S, Assita ER, Mazzola M, Kiem A, Handley M, Yun SH, Kwok SJJ | Cytometry. Part A : the journal of the International Society for Analytical Cytology | 39467031 | Cytometry A | 2024 Nov | https://www.ncbi.nlm.nih.gov/pubmed/39467031 |
| 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 |
| Aggregation-Induced Stimulated Emission of 100% Dye Microspheres. | Kim KH, Yan H, Yun SH | Advanced optical materials | 38107448 | Adv Opt Mater | 2023 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/38107448 |
| 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 |
| 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 |
| 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 |
| Large-scale combinatorial optical barcoding of cells with laser particles. | Martino N, Yan H, Abbott G, Fahlberg M, Forward S, Kim KH, Wu Y, Zhu H, Kwok SJJ, Yun SH | Light, science & applications | 40169572 | Light Sci Appl | 2025 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/40169572 |
| Single-cell transcriptomics of a dynamic cell behavior in murine airways. | Kwok SJJ, Montoro DT, Haber AL, Yun SH, Vinarsky V | eLife | 37083555 | Elife | 2023 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/37083555 |
| Overcoming fixation and permeabilization challenges in flow cytometry by optical barcoding and multi-pass acquisition. | Fahlberg MD, Forward S, Assita ER, Mazzola M, Kiem A, Handley M, Yun SH, Kwok SJJ | bioRxiv : the preprint server for biology | 39185194 | bioRxiv | 2024 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/39185194 |
| 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 |
| Wideband Tuning and Deep-Tissue Spectral Detection of Indium Phosphide Nano-Laser Particles. | Cho S, Moon W, Martino N, Yun SH | bioRxiv : the preprint server for biology | 39677764 | bioRxiv | 2024 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/39677764 |
| Half-wave nanolasers and intracellular plasmonic lasing particles. | Cho S, Martino N, Yun SH | Nature nanotechnology | 39747602 | Nat Nanotechnol | 2025 Mar | https://www.ncbi.nlm.nih.gov/pubmed/39747602 |
| Plasmonic Hinge Modes in Metal-Coated Nanolasers. | Cho S, Yang Y, Soljačić M, Yun SH | Nano letters | 39414245 | Nano Lett | 2024 Oct 30 | https://www.ncbi.nlm.nih.gov/pubmed/39414245 |
| Determination of [11C]rifampin pharmacokinetics within Mycobacterium tuberculosis-infected mice by using dynamic positron emission tomography bioimaging. | DeMarco VP, Ordonez AA, Klunk M, Prideaux B, Wang H, Zhuo Z, Tonge PJ, Dannals RF, Holt DP, Lee CK, Weinstein EA, Dartois V, Dooley KE, Jain SK | Antimicrobial agents and chemotherapy | 26169396 | Antimicrob Agents Chemother | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/26169396 |
| Computer-aided pulmonary image analysis in small animal models. | Xu Z, Bagci U, Mansoor A, Kramer-Marek G, Luna B, Kubler A, Dey B, Foster B, Papadakis GZ, Camp JV, Jonsson CB, Bishai WR, Jain S, Udupa JK, Mollura DJ | Medical physics | 26133591 | Med Phys | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26133591 |
| Design of Selective Substrates and Activity-Based Probes for Hydrolase Important for Pathogenesis 1 (HIP1) from Mycobacterium tuberculosis. | Lentz CS, Ordonez AA, Kasperkiewicz P, La Greca F, O'Donoghue AJ, Schulze CJ, Powers JC, Craik CS, Drag M, Jain SK, Bogyo M | ACS infectious diseases | 27739665 | ACS Infect Dis | 2016 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/27739665 |
| The biodistribution of 5-[18F]fluoropyrazinamide in Mycobacterium tuberculosis-infected mice determined by positron emission tomography. | Zhang Z, Ordonez AA, Smith-Jones P, Wang H, Gogarty KR, Daryaee F, Bambarger LE, Chang YS, Jain SK, Tonge PJ | PloS one | 28151985 | PLoS One | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28151985 |
| SPECT/CT Imaging of Mycobacterium tuberculosis Infection with [(125)I]anti-C3d mAb. | Foss CA, Kulik L, Ordonez AA, Jain SK, Michael Holers V, Thurman JM, Pomper MG | Molecular imaging and biology | 29998399 | Mol Imaging Biol | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29998399 |
| Positron Emission Tomography Imaging with 2-[(18)F]F- p-Aminobenzoic Acid Detects Staphylococcus aureus Infections and Monitors Drug Response. | Zhang Z, Ordonez AA, Wang H, Li Y, Gogarty KR, Weinstein EA, Daryaee F, Merino J, Yoon GE, Kalinda AS, Mease RC, Iuliano JN, Smith-Jones PM, Jain SK, Tonge PJ | ACS infectious diseases | 30067329 | ACS Infect Dis | 2018 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/30067329 |
| Matrix Metalloproteinases in Pulmonary and Central Nervous System Tuberculosis-A Review. | Rohlwink UK, Walker NF, Ordonez AA, Li YJ, Tucker EW, Elkington PT, Wilkinson RJ, Wilkinson KA | International journal of molecular sciences | 30889803 | Int J Mol Sci | 2019 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/30889803 |
| Novel vaccine strategies against tuberculosis: a road less travelled. | Pokkali S, Jain S | Expert review of vaccines | 24195477 | Expert Rev Vaccines | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24195477 |
| Radiosynthesis and validation of [Carboxy-(11) C]4-Aminobenzoic acid ([(11) C]PABA), a PET radiotracer for imaging bacterial infections. | Holt DP, Kalinda AS, Bambarger LE, Jain SK, Dannals RF | Journal of labelled compounds & radiopharmaceuticals | 30089334 | J Labelled Comp Radiopharm | 2019 Jan | https://www.ncbi.nlm.nih.gov/pubmed/30089334 |
| Radiosynthesis and PET Bioimaging of (76)Br-Bedaquiline in a Murine Model of Tuberculosis. | Ordonez AA, Carroll LS, Abhishek S, Mota F, Ruiz-Bedoya CA, Klunk MH, Singh AK, Freundlich JS, Mease RC, Jain SK | ACS infectious diseases | 31345032 | ACS Infect Dis | 2019 Dec 13 | https://www.ncbi.nlm.nih.gov/pubmed/31345032 |
| Extensively drug-resistant tuberculosis in a young child after travel to India. | Salazar-Austin N, Ordonez AA, Hsu AJ, Benson JE, Mahesh M, Menachery E, Razeq JH, Salfinger M, Starke JR, Milstone AM, Parrish N, Nuermberger EL, Jain SK | The Lancet. Infectious diseases | 26607130 | Lancet Infect Dis | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26607130 |
| Balancing the Risks of Radiation and Anesthesia in Pediatric Patients. | Tucker EW, Jain SK, Mahesh M | Journal of the American College of Radiology : JACR | 28750847 | J Am Coll Radiol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28750847 |
| Imaging Enterobacterales infections in patients using pathogen-specific positron emission tomography. | Ordonez AA, Wintaco LM, Mota F, Restrepo AF, Ruiz-Bedoya CA, Reyes CF, Uribe LG, Abhishek S, D'Alessio FR, Holt DP, Dannals RF, Rowe SP, Castillo VR, Pomper MG, Granados U, Jain SK | Science translational medicine | 33853931 | Sci Transl Med | 2021 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/33853931 |
| Radiotracer Development for Bacterial Imaging. | Mota F, Ordonez AA, Firth G, Ruiz-Bedoya CA, Ma MT, Jain SK | Journal of medicinal chemistry | 32048838 | J Med Chem | 2020 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/32048838 |
| Advanced imaging tools for childhood tuberculosis: potential applications and research needs. | Jain SK, Andronikou S, Goussard P, Antani S, Gomez-Pastrana D, Delacourt C, Starke JR, Ordonez AA, Jean-Philippe P, Browning RS, Perez-Velez CM | The Lancet. Infectious diseases | 32589869 | Lancet Infect Dis | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/32589869 |
| Visualizing the dynamics of tuberculosis pathology using molecular imaging. | Ordonez AA, Tucker EW, Anderson CJ, Carter CL, Ganatra S, Kaushal D, Kramnik I, Lin PL, Madigan CA, Mendez S, Rao J, Savic RM, Tobin DM, Walzl G, Wilkinson RJ, Lacourciere KA, Via LE, Jain SK | The Journal of clinical investigation | 33645551 | J Clin Invest | 2021 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/33645551 |
| The integrated stress response mediates necrosis in murine Mycobacterium tuberculosis granulomas. | Bhattacharya B, Xiao S, Chatterjee S, Urbanowski M, Ordonez A, Ihms EA, Agrahari G, Lun S, Berland R, Pichugin A, Gao Y, Connor J, Ivanov AR, Yan BS, Kobzik L, Koo BB, Jain S, Bishai W, Kramnik I | The Journal of clinical investigation | 33301427 | J Clin Invest | 2021 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/33301427 |
| Caspase-Based PET for Evaluating Pro-Apoptotic Treatments in a Tuberculosis Mouse Model. | Ordonez AA, Abhishek S, Singh AK, Klunk MH, Azad BB, Aboagye EO, Carroll L, Jain SK | Molecular imaging and biology | 32232626 | Mol Imaging Biol | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/32232626 |
| Radiosynthesis and Biodistribution of (18)F-Linezolid in Mycobacterium tuberculosis-Infected Mice Using Positron Emission Tomography. | Mota F, Jadhav R, Ruiz-Bedoya CA, Ordonez AA, Klunk MH, Freundlich JS, Jain SK | ACS infectious diseases | 32243132 | ACS Infect Dis | 2020 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/32243132 |
| Capsules for biomedical image segmentation. | LaLonde R, Xu Z, Irmakci I, Jain S, Bagci U | Medical image analysis | 33246227 | Med Image Anal | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33246227 |
| High-dose rifampin improves bactericidal activity without increased intracerebral inflammation in animal models of tuberculous meningitis. | Ruiz-Bedoya CA, Mota F, Tucker EW, Mahmud FJ, Reyes-Mantilla MI, Erice C, Bahr M, Flavahan K, de Jesus P, Kim J, Foss CA, Peloquin CA, Hammoud DA, Ordonez AA, Pardo CA, Jain SK | The Journal of clinical investigation | 35085105 | J Clin Invest | 2022 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/35085105 |
| 11C-Para-aminobenzoic acid PET imaging of S. aureus and MRSA infection in preclinical models and humans. | Ordonez AA, Parker MF, Miller RJ, Plyku D, Ruiz-Bedoya CA, Tucker EW, Luu JM, Dikeman DA, Lesniak WG, Holt DP, Dannals RF, Miller LS, Rowe SP, Wilson DM, Jain SK | JCI insight | 35014627 | JCI Insight | 2022 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/35014627 |
| A Systematic Approach for Developing Bacteria-Specific Imaging Tracers. | Ordonez AA, Weinstein EA, Bambarger LE, Saini V, Chang YS, DeMarco VP, Klunk MH, Urbanowski ME, Moulton KL, Murawski AM, Pokkali S, Kalinda AS, Jain SK | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 27635025 | J Nucl Med | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27635025 |
| Polymeric nanofiber coating with tunable combinatorial antibiotic delivery prevents biofilm-associated infection in vivo. | Ashbaugh AG, Jiang X, Zheng J, Tsai AS, Kim WS, Thompson JM, Miller RJ, Shahbazian JH, Wang Y, Dillen CA, Ordonez AA, Chang YS, Jain SK, Jones LC, Sterling RS, Mao HQ, Miller LS | Proceedings of the National Academy of Sciences of the United States of America | 27791154 | Proc Natl Acad Sci U S A | 2016 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/27791154 |
| Joint solution for PET image segmentation, denoising, and partial volume correction. | Xu Z, Gao M, Papadakis GZ, Luna B, Jain S, Mollura DJ, Bagci U | Medical image analysis | 29627687 | Med Image Anal | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29627687 |
| [(11)C]Para-Aminobenzoic Acid: A Positron Emission Tomography Tracer Targeting Bacteria-Specific Metabolism. | Mutch CA, Ordonez AA, Qin H, Parker M, Bambarger LE, Villanueva-Meyer JE, Blecha J, Carroll V, Taglang C, Flavell R, Sriram R, VanBrocklin H, Rosenberg O, Ohliger MA, Jain SK, Neumann KD, Wilson DM | ACS infectious diseases | 29712422 | ACS Infect Dis | 2018 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/29712422 |
| Tuberculous meningitis: a roadmap for advancing basic and translational research. | Jain SK, Tobin DM, Tucker EW, Venketaraman V, Ordonez AA, Jayashankar L, Siddiqi OK, Hammoud DA, Prasadarao NV, Sandor M, Hafner R, Fabry Z, NIH Tuberculous Meningitis Writing Group | Nature immunology | 29777209 | Nat Immunol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29777209 |
| Matrix Metalloproteinase Inhibition in a Murine Model of Cavitary Tuberculosis Paradoxically Worsens Pathology. | Ordonez AA, Pokkali S, Sanchez-Bautista J, Klunk MH, Urbanowski ME, Kübler A, Bishai WR, Elkington PT, Jain SK | The Journal of infectious diseases | 29920600 | J Infect Dis | 2019 Jan 29 | https://www.ncbi.nlm.nih.gov/pubmed/29920600 |
| In vivo prediction of tuberculosis-associated cavity formation in rabbits. | Luna B, Kubler A, Larsson C, Foster B, Bagci U, Mollura DJ, Jain SK, Bishai WR | The Journal of infectious diseases | 25117755 | J Infect Dis | 2015 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/25117755 |
| Efficient ribcage segmentation from CT scans using shape features. | Xu Z, Bagci U, Jonsson C, Jain S, Mollura DJ | Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference | 25570597 | Annu Int Conf IEEE Eng Med Biol Soc | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25570597 |
| Imaging Chronic Tuberculous Lesions Using Sodium [(18)F]Fluoride Positron Emission Tomography in Mice. | Ordonez AA, DeMarco VP, Klunk MH, Pokkali S, Jain SK | Molecular imaging and biology | 25750032 | Mol Imaging Biol | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25750032 |
| Molecular imaging of bacterial infections: Overcoming the barriers to clinical translation. | Ordonez AA, Sellmyer MA, Gowrishankar G, Ruiz-Bedoya CA, Tucker EW, Palestro CJ, Hammoud DA, Jain SK | Science translational medicine | 31484790 | Sci Transl Med | 2019 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/31484790 |
| Flagging Bacteria with Radiolabeled d-Amino Acids. | Mota F, Jain SK | ACS central science | 32123728 | ACS Cent Sci | 2020 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/32123728 |
| Kit-based synthesis of 2-deoxy-2-[(18)F]-fluoro-D-sorbitol for bacterial imaging. | Mota F, De Jesus P, Jain SK | Nature protocols | 34686858 | Nat Protoc | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34686858 |
| Molecular Imaging: a Novel Tool To Visualize Pathogenesis of Infections In Situ. | Gordon O, Ruiz-Bedoya CA, Ordonez AA, Tucker EW, Jain SK | mBio | 31662452 | mBio | 2019 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/31662452 |
| Stability and Viability of SARS-CoV-2. | Rubens JH, Karakousis PC, Jain SK | The New England journal of medicine | 32283575 | N Engl J Med | 2020 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/32283575 |
| Dynamic imaging in patients with tuberculosis reveals heterogeneous drug exposures in pulmonary lesions. | Ordonez AA, Wang H, Magombedze G, Ruiz-Bedoya CA, Srivastava S, Chen A, Tucker EW, Urbanowski ME, Pieterse L, Fabian Cardozo E, Lodge MA, Shah MR, Holt DP, Mathews WB, Dannals RF, Gobburu JVS, Peloquin CA, Rowe SP, Gumbo T, Ivaturi VD, Jain SK | Nature medicine | 32066976 | Nat Med | 2020 Apr | https://www.ncbi.nlm.nih.gov/pubmed/32066976 |
| Successful cure of extensively drug-resistant pulmonary tuberculosis in a young child. | Salazar-Austin N, Akinboyo I, Jain SK | The Lancet. Infectious diseases | 28845790 | Lancet Infect Dis | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28845790 |
| Mouse model of pulmonary cavitary tuberculosis and expression of matrix metalloproteinase-9. | Ordonez AA, Tasneen R, Pokkali S, Xu Z, Converse PJ, Klunk MH, Mollura DJ, Nuermberger EL, Jain SK | Disease models & mechanisms | 27482816 | Dis Model Mech | 2016 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/27482816 |
| Noninvasive (11)C-rifampin positron emission tomography reveals drug biodistribution in tuberculous meningitis. | Tucker EW, Guglieri-Lopez B, Ordonez AA, Ritchie B, Klunk MH, Sharma R, Chang YS, Sanchez-Bautista J, Frey S, Lodge MA, Rowe SP, Holt DP, Gobburu JVS, Peloquin CA, Mathews WB, Dannals RF, Pardo CA, Kannan S, Ivaturi VD, Jain SK | Science translational medicine | 30518610 | Sci Transl Med | 2018 Dec 5 | https://www.ncbi.nlm.nih.gov/pubmed/30518610 |
| Molecular Imaging of Diabetic Foot Infections: New Tools for Old Questions. | Ruiz-Bedoya CA, Gordon O, Mota F, Abhishek S, Tucker EW, Ordonez AA, Jain SK | International journal of molecular sciences | 31795077 | Int J Mol Sci | 2019 Nov 28 | https://www.ncbi.nlm.nih.gov/pubmed/31795077 |
| Cavitary tuberculosis: the gateway of disease transmission. | Urbanowski ME, Ordonez AA, Ruiz-Bedoya CA, Jain SK, Bishai WR | The Lancet. Infectious diseases | 32482293 | Lancet Infect Dis | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32482293 |
| (11)C-PABA as a PET Radiotracer for Functional Renal Imaging: Preclinical and First-in-Human Study. | Ruiz-Bedoya CA, Ordonez AA, Werner RA, Plyku D, Klunk MH, Leal J, Lesniak WG, Holt DP, Dannals RF, Higuchi T, Rowe SP, Jain SK | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 32198314 | J Nucl Med | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/32198314 |
| Imaging Macrophage-associated Inflammation. | Foss CA, Sanchez-Bautista J, Jain SK | Seminars in nuclear medicine | 29626941 | Semin Nucl Med | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29626941 |
| Imaging Pulmonary Foreign Body Reaction Using [(125)I]iodo-DPA-713 SPECT/CT in Mice. | Sanchez-Bautista J, Foss CA, Ordonez AA, Klunk MH, Jain SK | Molecular imaging and biology | 29987615 | Mol Imaging Biol | 2019 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29987615 |
| Pathogen-Specific Bacterial Imaging in Nuclear Medicine. | Ordonez AA, Jain SK | Seminars in nuclear medicine | 29452620 | Semin Nucl Med | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29452620 |
| Pharmacokinetics of rifapentine and rifampin in a rabbit model of tuberculosis and correlation with clinical trial data. | Rifat D, Prideaux B, Savic RM, Urbanowski ME, Parsons TL, Luna B, Marzinke MA, Ordonez AA, DeMarco VP, Jain SK, Dartois V, Bishai WR, Dooley KE | Science translational medicine | 29618565 | Sci Transl Med | 2018 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/29618565 |
| Dynamic PET-facilitated modeling and high-dose rifampin regimens for Staphylococcus aureus orthopedic implant-associated infections. | Gordon O, Lee DE, Liu B, Langevin B, Ordonez AA, Dikeman DA, Shafiq B, Thompson JM, Sponseller PD, Flavahan K, Lodge MA, Rowe SP, Dannals RF, Ruiz-Bedoya CA, Read TD, Peloquin CA, Archer NK, Miller LS, Davis KM, Gobburu JVS, Jain SK | Science translational medicine | 34851697 | Sci Transl Med | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34851697 |
| Microglia activation in a pediatric rabbit model of tuberculous meningitis. | Tucker EW, Pokkali S, Zhang Z, DeMarco VP, Klunk M, Smith ES, Ordonez AA, Penet MF, Bhujwalla Z, Jain SK, Kannan S | Disease models & mechanisms | 27935825 | Dis Model Mech | 2016 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/27935825 |
| The Promise of Molecular Imaging in the Study and Treatment of Infectious Diseases. | Jain SK | Molecular imaging and biology | 28155078 | Mol Imaging Biol | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28155078 |
| Delamanid Central Nervous System Pharmacokinetics in Tuberculous Meningitis in Rabbits and Humans. | Tucker EW, Pieterse L, Zimmerman MD, Udwadia ZF, Peloquin CA, Gler MT, Ganatra S, Tornheim JA, Chawla P, Caoili JC, Ritchie B, Jain SK, Dartois V, Dooley KE | Antimicrobial agents and chemotherapy | 31383662 | Antimicrob Agents Chemother | 2019 Oct | https://www.ncbi.nlm.nih.gov/pubmed/31383662 |
| Rabbit model of Staphylococcus aureus implant-associated spinal infection. | Gordon O, Miller RJ, Thompson JM, Ordonez AA, Klunk MH, Dikeman DA, Joyce DP, Ruiz-Bedoya CA, Miller LS, Jain SK | Disease models & mechanisms | 32586832 | Dis Model Mech | 2020 Jul 28 | https://www.ncbi.nlm.nih.gov/pubmed/32586832 |
| Re: Increased 18F-2-Fluorodeoxysorbitol (18F-FDS) Activity in a Pituitary Spindle Cell Carcinoma. | Javadi MS, Ordonez AA, Jain SK | Clinical nuclear medicine | 28319504 | Clin Nucl Med | 2017 Aug | https://www.ncbi.nlm.nih.gov/pubmed/28319504 |
| PET/CT imaging of CSF1R in a mouse model of tuberculosis. | Foss CA, Ordonez AA, Naik R, Das D, Hall A, Wu Y, Dannals RF, Jain SK, Pomper MG, Horti AG | European journal of nuclear medicine and molecular imaging | 35713665 | Eur J Nucl Med Mol Imaging | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/35713665 |
| Toehold switches: de-novo-designed regulators of gene expression. | Green AA, Silver PA, Collins JJ, Yin P | Cell | 25417166 | Cell | 2014 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/25417166 |
| 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 |
| 124-Color Super-resolution Imaging by Engineering DNA-PAINT Blinking Kinetics. | Wade OK, Woehrstein JB, Nickels PC, Strauss S, Stehr F, Stein J, Schueder F, Strauss MT, Ganji M, Schnitzbauer J, Grabmayr H, Yin P, Schwille P, Jungmann R | Nano letters | 30864449 | Nano Lett | 2019 Apr 10 | https://www.ncbi.nlm.nih.gov/pubmed/30864449 |
| SABER amplifies FISH: enhanced multiplexed imaging of RNA and DNA in cells and tissues. | Kishi JY, Lapan SW, Beliveau BJ, West ER, Zhu A, Sasaki HM, Saka SK, Wang Y, Cepko CL, Yin P | Nature methods | 31110282 | Nat Methods | 2019 Jun | https://www.ncbi.nlm.nih.gov/pubmed/31110282 |
| Imaging RNA polymerase III transcription using a photostable RNA-fluorophore complex. | Song W, Filonov GS, Kim H, Hirsch M, Li X, Moon JD, Jaffrey SR | Nature chemical biology | 28945233 | Nat Chem Biol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28945233 |
| Multiplexed 3D cellular super-resolution imaging with DNA-PAINT and Exchange-PAINT. | Jungmann R, Avendaño MS, Woehrstein JB, Dai M, Shih WM, Yin P | Nature methods | 24487583 | Nat Methods | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24487583 |
| A Compact DNA Cube with Side Length 10 nm. | Scheible MB, Ong LL, Woehrstein JB, Jungmann R, Yin P, Simmel FC | Small (Weinheim an der Bergstrasse, Germany) | 26294348 | Small | 2015 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/26294348 |
| Ribocomputing: Cellular Logic Computation Using RNA Devices. | Kim J, Yin P, Green AA | Biochemistry | 29256603 | Biochemistry | 2018 Feb 13 | https://www.ncbi.nlm.nih.gov/pubmed/29256603 |
| 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 |
| Sub-100-nm metafluorophores with digitally tunable optical properties self-assembled from DNA. | Woehrstein JB, Strauss MT, Ong LL, Wei B, Zhang DY, Jungmann R, Yin P | Science advances | 28691083 | Sci Adv | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28691083 |
| Complex cellular logic computation using ribocomputing devices. | Green AA, Kim J, Ma D, Silver PA, Collins JJ, Yin P | Nature | 28746304 | Nature | 2017 Aug 3 | https://www.ncbi.nlm.nih.gov/pubmed/28746304 |
| Axial plane single-molecule super-resolution microscopy of whole cells. | An S, Ziegler KF, Zhang P, Wang Y, Kwok T, Xu F, Bi C, Matosevic S, Yin P, Li T, Huang F | Biomedical optics express | 32010528 | Biomed Opt Express | 2020 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/32010528 |
| Quantitative super-resolution imaging with qPAINT. | Jungmann R, Avendaño MS, Dai M, Woehrstein JB, Agasti SS, Feiger Z, Rodal A, Yin P | Nature methods | 27018580 | Nat Methods | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/27018580 |
| Single-stranded DNA and RNA origami. | Han D, Qi X, Myhrvold C, Wang B, Dai M, Jiang S, Bates M, Liu Y, An B, Zhang F, Yan H, Yin P | Science (New York, N.Y.) | 29242318 | Science | 2017 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/29242318 |
| Polyhedra self-assembled from DNA tripods and characterized with 3D DNA-PAINT. | Iinuma R, Ke Y, Jungmann R, Schlichthaerle T, Woehrstein JB, Yin P | Science (New York, N.Y.) | 24625926 | Science | 2014 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/24625926 |
| Multiplexed Exchange-PAINT imaging reveals ligand-dependent EGFR and Met interactions in the plasma membrane. | Werbin JL, Avendaño MS, Becker V, Jungmann R, Yin P, Danuser G, Sorger PK | Scientific reports | 28939861 | Sci Rep | 2017 Sep 22 | https://www.ncbi.nlm.nih.gov/pubmed/28939861 |
| A DNA nanoscope via auto-cycling proximity recording. | Schaus TE, Woo S, Xuan F, Chen X, Yin P | Nature communications | 28947733 | Nat Commun | 2017 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/28947733 |
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| In vivo metabolic fingerprinting of neutral lipids with hyperspectral stimulated Raman scattering microscopy. | Fu D, Yu Y, Folick A, Currie E, Farese RV Jr, Tsai TH, Xie XS, Wang MC | Journal of the American Chemical Society | 24869754 | J Am Chem Soc | 2014 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/24869754 |
| Hyperspectral imaging with stimulated Raman scattering by chirped femtosecond lasers. | Fu D, Holtom G, Freudiger C, Zhang X, Xie XS | The journal of physical chemistry. B | 23256635 | J Phys Chem B | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23256635 |
| Rapid, label-free detection of brain tumors with stimulated Raman scattering microscopy. | Ji M, Orringer DA, Freudiger CW, Ramkissoon S, Liu X, Lau D, Golby AJ, Norton I, Hayashi M, Agar NY, Young GS, Spino C, Santagata S, Camelo-Piragua S, Ligon KL, Sagher O, Xie XS | Science translational medicine | 24005159 | Sci Transl Med | 2013 Sep 4 | https://www.ncbi.nlm.nih.gov/pubmed/24005159 |
| Rapid intraoperative histology of unprocessed surgical specimens via fibre-laser-based stimulated Raman scattering microscopy. | Orringer DA, Pandian B, Niknafs YS, Hollon TC, Boyle J, Lewis S, Garrard M, Hervey-Jumper SL, Garton HJL, Maher CO, Heth JA, Sagher O, Wilkinson DA, Snuderl M, Venneti S, Ramkissoon SH, McFadden KA, Fisher-Hubbard A, Lieberman AP, Johnson TD, Xie XS, Trautman JK, Freudiger CW, Camelo-Piragua S | Nature biomedical engineering | 28955599 | Nat Biomed Eng | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/28955599 |
| Label-free live-cell imaging of nucleic acids using stimulated Raman scattering microscopy. | Zhang X, Roeffaers MB, Basu S, Daniele JR, Fu D, Freudiger CW, Holtom GR, Xie XS | Chemphyschem : a European journal of chemical physics and physical chemistry | 22368112 | Chemphyschem | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22368112 |
| Multicolored stain-free histopathology with coherent Raman imaging. | Freudiger CW, Pfannl R, Orringer DA, Saar BG, Ji M, Zeng Q, Ottoboni L, Wei Y, Waeber C, Sims JR, De Jager PL, Sagher O, Philbert MA, Xu X, Kesari S, Xie XS, Young GS | Laboratory investigation; a journal of technical methods and pathology | 22906986 | Lab Invest | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22906986 |
| Monitoring peripheral nerve degeneration in ALS by label-free stimulated Raman scattering imaging. | Tian F, Yang W, Mordes DA, Wang JY, Salameh JS, Mok J, Chew J, Sharma A, Leno-Duran E, Suzuki-Uematsu S, Suzuki N, Han SS, Lu FK, Ji M, Zhang R, Liu Y, Strominger J, Shneider NA, Petrucelli L, Xie XS, Eggan K | Nature communications | 27796305 | Nat Commun | 2016 Oct 31 | https://www.ncbi.nlm.nih.gov/pubmed/27796305 |
| Multicolor stimulated Raman scattering microscopy with a rapidly tunable optical parametric oscillator. | Kong L, Ji M, Holtom GR, Fu D, Freudiger CW, Xie XS | Optics letters | 23454943 | Opt Lett | 2013 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/23454943 |
| Highly specific label-free molecular imaging with spectrally tailored excitation stimulated Raman scattering (STE-SRS) microscopy. | Freudiger CW, Min W, Holtom GR, Xu B, Dantus M, Xie XS | Nature photonics | 23015809 | Nat Photonics | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/23015809 |
| Imaging drug delivery to skin with stimulated Raman scattering microscopy. | Saar BG, Contreras-Rojas LR, Xie XS, Guy RH | Molecular pharmaceutics | 21548600 | Mol Pharm | 2011 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/21548600 |
| Detection of human brain tumor infiltration with quantitative stimulated Raman scattering microscopy. | Ji M, Lewis S, Camelo-Piragua S, Ramkissoon SH, Snuderl M, Venneti S, Fisher-Hubbard A, Garrard M, Fu D, Wang AC, Heth JA, Maher CO, Sanai N, Johnson TD, Freudiger CW, Sagher O, Xie XS, Orringer DA | Science translational medicine | 26468325 | Sci Transl Med | 2015 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/26468325 |
| Improving the accuracy of brain tumor surgery via Raman-based technology. | Hollon T, Lewis S, Freudiger CW, Sunney Xie X, Orringer DA | Neurosurgical focus | 26926067 | Neurosurg Focus | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26926067 |
| 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 |
| A stochastic single-molecule event triggers phenotype switching of a bacterial cell. | Choi PJ, Cai L, Frieda K, Xie XS | Science (New York, N.Y.) | 18927393 | Science | 2008 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/18927393 |
| Mapping DNA polymerase errors by single-molecule sequencing. | Lee DF, Lu J, Chang S, Loparo JJ, Xie XS | Nucleic acids research | 27185891 | Nucleic Acids Res | 2016 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/27185891 |
| Stimulated Raman Scattering Microscopy with a Robust Fibre Laser Source. | Freudiger CW, Yang W, Holtom GR, Peyghambarian N, Xie XS, Kieu KQ | Nature photonics | 25313312 | Nat Photonics | 2014 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/25313312 |
| Innate immune pathway modulator screen identifies STING pathway activation as a strategy to inhibit multiple families of arbo and respiratory viruses. | Garcia G Jr, Irudayam JI, Jeyachandran AV, Dubey S, Chang C, Castillo Cario S, Price N, Arumugam S, Marquez AL, Shah A, Fanaei A, Chakravarty N, Joshi S, Sinha S, French SW, Parcells MS, Ramaiah A, Arumugaswami V | Cell reports. Medicine | 37119814 | Cell Rep Med | 2023 May 16 | https://www.ncbi.nlm.nih.gov/pubmed/37119814 |
| Low complexity domains of the nucleocapsid protein of SARS-CoV-2 form amyloid fibrils. | Tayeb-Fligelman E, Bowler JT, Tai CE, Sawaya MR, Jiang YX, Garcia G Jr, Griner SL, Cheng X, Salwinski L, Lutter L, Seidler PM, Lu J, Rosenberg GM, Hou K, Abskharon R, Pan H, Zee CT, Boyer DR, Li Y, Anderson DH, Murray KA, Falcon G, Cascio D, Saelices L, Damoiseaux R, Arumugaswami V, Guo F, Eisenberg DS | Nature communications | 37185252 | Nat Commun | 2023 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/37185252 |
| Comparative Analysis of Molecular Pathogenic Mechanisms and Antiviral Development Targeting Old and New World Hantaviruses. | Jeyachandran AV, Irudayam JI, Dubey S, Chakravarty N, Konda B, Shah A, Su B, Wang C, Cui Q, Williams KJ, Srikanth S, Shi Y, Deb A, Damoiseaux R, Stripp BR, Ramaiah A, Arumugaswami V | bioRxiv : the preprint server for biology | 37577539 | bioRxiv | 2023 Aug 5 | https://www.ncbi.nlm.nih.gov/pubmed/37577539 |
| Neurological pathophysiology of SARS-CoV-2 and pandemic potential RNA viruses: a comparative analysis. | Chakravarty N, Senthilnathan T, Paiola S, Gyani P, Castillo Cario S, Urena E, Jeysankar A, Jeysankar P, Ignatius Irudayam J, Natesan Subramanian S, Lavretsky H, Joshi S, Garcia G Jr, Ramaiah A, Arumugaswami V | FEBS letters | 34757622 | FEBS Lett | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/34757622 |
| The Apolipoprotein E neutralizing antibody inhibits SARS-CoV-2 infection by blocking cellular entry of lipoviral particles. | Cui Q, Jeyachandran AV, Garcia G, Qin C, Zhou Y, Zhang M, Wang C, Sun G, Liu W, Zhou T, Feng L, Palmer C, Li Z, Aziz A, Gomperts BN, Feng P, Arumugaswami V, Shi Y | MedComm | 37822714 | MedComm (2020) | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37822714 |
| Differential Susceptibility of Ex Vivo Primary Glioblastoma Tumors to Oncolytic Effect of Modified Zika Virus. | Garcia G Jr, Chakravarty N, Paiola S, Urena E, Gyani P, Tse C, French SW, Danielpour M, Breunig JJ, Nathanson DA, Arumugaswami V | Cells | 37830597 | Cells | 2023 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/37830597 |
| ORAI1 Limits SARS-CoV-2 Infection by Regulating Tonic Type I IFN Signaling. | Wu B, Ramaiah A, Garcia G Jr, Hasiakos S, Arumugaswami V, Srikanth S | Journal of immunology (Baltimore, Md. : 1950) | 34819389 | J Immunol | 2022 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/34819389 |
| Longitudinal Evaluation of Antibody Persistence in Mother-Infant Dyads After Severe Acute Respiratory Syndrome Coronavirus 2 Infection in Pregnancy. | Cambou MC, Liu CM, Mok T, Fajardo-Martinez V, Paiola SG, Ibarrondo FJ, Kerin T, Fuller T, Tobin NH, Garcia G, Bhattacharya D, Aldrovandi GM, Arumugaswami V, Foo SS, Jung JU, Vasconcelos Z, Brasil P, Brendolin M, Yang OO, Rao R, Nielsen-Saines K | The Journal of infectious diseases | 36082433 | J Infect Dis | 2023 Jan 11 | https://www.ncbi.nlm.nih.gov/pubmed/36082433 |
| Replication-Deficient Zika Vector-Based Vaccine Provides Maternal and Fetal Protection in Mouse Model. | Garcia G Jr, Chakravarty N, Abu AE, Jeyachandran AV, Takano KA, Brown R, Morizono K, Arumugaswami V | Microbiology spectrum | 36169338 | Microbiol Spectr | 2022 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/36169338 |
| A ketogenic diet can mitigate SARS-CoV-2 induced systemic reprogramming and inflammation. | Palermo A, Li S, Ten Hoeve J, Chellappa A, Morris A, Dillon B, Ma F, Wang Y, Cao E, Shabane B, Acín-Perez R, Petcherski A, Lusis AJ, Hazen S, Shirihai OS, Pellegrini M, Arumugaswami V, Graeber TG, Deb A | Communications biology | 37923961 | Commun Biol | 2023 Nov 3 | https://www.ncbi.nlm.nih.gov/pubmed/37923961 |
| Fibroblasts in heart scar tissue directly regulate cardiac excitability and arrhythmogenesis. | Wang Y, Li Q, Tao B, Angelini M, Ramadoss S, Sun B, Wang P, Krokhaleva Y, Ma F, Gu Y, Espinoza A, Yamauchi K, Pellegrini M, Novitch B, Olcese R, Qu Z, Song Z, Deb A | Science (New York, N.Y.) | 37769108 | Science | 2023 Sep 29 | https://www.ncbi.nlm.nih.gov/pubmed/37769108 |
| Development of a blocker of the universal phosphatidylserine- and phosphatidylethanolamine-dependent viral entry pathways. | Song DH, Garcia G Jr, Situ K, Chua BA, Hong MLO, Do EA, Ramirez CM, Harui A, Arumugaswami V, Morizono K | Virology | 34020328 | Virology | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34020328 |
| Targeting the coronavirus nucleocapsid protein through GSK-3 inhibition. | Liu X, Verma A, Garcia G Jr, Ramage H, Lucas A, Myers RL, Michaelson JJ, Coryell W, Kumar A, Charney AW, Kazanietz MG, Rader DJ, Ritchie MD, Berrettini WH, Schultz DC, Cherry S, Damoiseaux R, Arumugaswami V, Klein PS | Proceedings of the National Academy of Sciences of the United States of America | 34593624 | Proc Natl Acad Sci U S A | 2021 Oct 19 | https://www.ncbi.nlm.nih.gov/pubmed/34593624 |
| In Silico Genome Analysis Reveals the Evolution and Potential Impact of SARS-CoV-2 Omicron Structural Changes on Host Immune Evasion and Antiviral Therapeutics. | Chauhan D, Chakravarty N, Jeyachandran AV, Jayakarunakaran A, Sinha S, Mishra R, Arumugaswami V, Ramaiah A | Viruses | 36366559 | Viruses | 2022 Nov 6 | https://www.ncbi.nlm.nih.gov/pubmed/36366559 |
| Hippo signaling pathway activation during SARS-CoV-2 infection contributes to host antiviral response. | Garcia G Jr, Jeyachandran AV, Wang Y, Irudayam JI, Cario SC, Sen C, Li S, Li Y, Kumar A, Nielsen-Saines K, French SW, Shah PS, Morizono K, Gomperts BN, Deb A, Ramaiah A, Arumugaswami V | PLoS biology | 36346780 | PLoS Biol | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36346780 |
| Broad-spectrum antiviral inhibitors targeting pandemic potential RNA viruses. | Garcia G Jr, Irudayam JI, Jeyachandran AV, Dubey S, Chang C, Cario SC, Price N, Arumugam S, Marquez AL, Shah A, Fanaei A, Chakravarty N, Joshi S, Sinha S, French SW, Parcells M, Ramaiah A, Arumugaswami V | bioRxiv : the preprint server for biology | 36711787 | bioRxiv | 2023 Jan 20 | https://www.ncbi.nlm.nih.gov/pubmed/36711787 |
| Mpox Virus and its ocular surface manifestations. | Chakravarty N, Hemani D, Paravastu R, Ahmad Z, Palani SN, Arumugaswami V, Kumar A | The ocular surface | 38972544 | Ocul Surf | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/38972544 |
| Differential Susceptibility of Fetal Retinal Pigment Epithelial Cells, hiPSC- Retinal Stem Cells, and Retinal Organoids to Zika Virus Infection. | Contreras D, Garcia G Jr, Jones MK, Martinez LE, Jayakarunakaran A, Gangalapudi V, Tang J, Wu Y, Zhao JJ, Chen Z, Ramaiah A, Tsui I, Kumar A, Nielsen-Saines K, Wang S, Arumugaswami V | Viruses | 36680182 | Viruses | 2023 Jan 1 | https://www.ncbi.nlm.nih.gov/pubmed/36680182 |
| Cardiomyocytes disrupt pyrimidine biosynthesis in nonmyocytes to regulate heart repair. | Li S, Yokota T, Wang P, Ten Hoeve J, Ma F, Le TM, Abt ER, Zhou Y, Wu R, Nanthavongdouangsy M, Rodriguez A, Wang Y, Lin YJ, Muranaka H, Sharpley M, Braddock DT, MacRae VE, Banerjee U, Chiou PY, Seldin M, Huang D, Teitell M, Gertsman I, Jung M, Bensinger SJ, Damoiseaux R, Faull K, Pellegrini M, Lusis AJ, Graeber TG, Radu CG, Deb A | The Journal of clinical investigation | 34813507 | J Clin Invest | 2022 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/34813507 |
| Hippo Signaling Pathway Activation during SARS-CoV-2 Infection Contributes to Host Antiviral Response. | Garcia G Jr, Wang Y, Ignatius Irudayam J, Jeyachandran AV, Cario SC, Sen C, Li S, Li Y, Kumar A, Nielsen-Saines K, French SW, Shah PS, Morizono K, Gomperts B, Deb A, Ramaiah A, Arumugaswami V | bioRxiv : the preprint server for biology | 35441167 | bioRxiv | 2022 Apr 8 | https://www.ncbi.nlm.nih.gov/pubmed/35441167 |
| SARS-CoV-2 and its beta variant of concern infect human conjunctival epithelial cells and induce differential antiviral innate immune response. | Singh S, Garcia G Jr, Shah R, Kramerov AA, Wright RE 3rd, Spektor TM, Ljubimov AV, Arumugaswami V, Kumar A | The ocular surface | 34583089 | Ocul Surf | 2022 Jan | https://www.ncbi.nlm.nih.gov/pubmed/34583089 |
| Regulation of insulin and adipokinetic hormone/glucagon production in flies. | Ahmad M, He L, Perrimon N | Wiley interdisciplinary reviews. Developmental biology | 31379062 | Wiley Interdiscip Rev Dev Biol | 2020 Mar | https://www.ncbi.nlm.nih.gov/pubmed/31379062 |
| Proximity labeling reveals non-centrosomal microtubule-organizing center components required for microtubule growth and localization. | Sanchez AD, Branon TC, Cote LE, Papagiannakis A, Liang X, Pickett MA, Shen K, Jacobs-Wagner C, Ting AY, Feldman JL | Current biology : CB | 34242576 | Curr Biol | 2021 Aug 23 | https://www.ncbi.nlm.nih.gov/pubmed/34242576 |
| Repairing the blood-brain barrier. | McMahon AP, Ichida JK | Science (New York, N.Y.) | 35175806 | Science | 2022 Feb 18 | https://www.ncbi.nlm.nih.gov/pubmed/35175806 |
| Split-TurboID enables contact-dependent proximity labeling in cells. | Cho KF, Branon TC, Rajeev S, Svinkina T, Udeshi ND, Thoudam T, Kwak C, Rhee HW, Lee IK, Carr SA, Ting AY | Proceedings of the National Academy of Sciences of the United States of America | 32424107 | Proc Natl Acad Sci U S A | 2020 Jun 2 | https://www.ncbi.nlm.nih.gov/pubmed/32424107 |
| RNA-protein interaction mapping via MS2- or Cas13-based APEX targeting. | Han S, Zhao BS, Myers SA, Carr SA, He C, Ting AY | Proceedings of the National Academy of Sciences of the United States of America | 32839320 | Proc Natl Acad Sci U S A | 2020 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/32839320 |
| Protein phosphatase 1 regulates core PCP signaling. | Song S, Cho B, Weiner AT, Nissen SB, Ojeda Naharros I, Sanchez Bosch P, Suyama K, Hu Y, He L, Svinkina T, Udeshi ND, Carr SA, Perrimon N, Axelrod JD | EMBO reports | 37975164 | EMBO Rep | 2023 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/37975164 |
| Protein phosphatase 1 regulates core PCP signaling. | Song S, Cho B, Weiner AT, Nissen SB, Naharros IO, Bosch PS, Suyama K, Hu Y, He L, Svinkina T, Udeshi ND, Carr SA, Perrimon N, Axelrod JD | bioRxiv : the preprint server for biology | 37745534 | bioRxiv | 2023 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/37745534 |
| Engineered allostery in light-regulated LOV-Turbo enables precise spatiotemporal control of proximity labeling in living cells. | Lee SY, Cheah JS, Zhao B, Xu C, Roh H, Kim CK, Cho KF, Udeshi ND, Carr SA, Ting AY | Nature methods | 37188954 | Nat Methods | 2023 Jun | https://www.ncbi.nlm.nih.gov/pubmed/37188954 |
| Proteomics of protein trafficking by in vivo tissue-specific labeling. | Droujinine IA, Meyer AS, Wang D, Udeshi ND, Hu Y, Rocco D, McMahon JA, Yang R, Guo J, Mu L, Carey DK, Svinkina T, Zeng R, Branon T, Tabatabai A, Bosch JA, Asara JM, Ting AY, Carr SA, McMahon AP, Perrimon N | Nature communications | 33888706 | Nat Commun | 2021 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/33888706 |
| Cell-Surface Proteomic Profiling in the Fly Brain Uncovers Wiring Regulators. | Li J, Han S, Li H, Udeshi ND, Svinkina T, Mani DR, Xu C, Guajardo R, Xie Q, Li T, Luginbuhl DJ, Wu B, McLaughlin CN, Xie A, Kaewsapsak P, Quake SR, Carr SA, Ting AY, Luo L | Cell | 31955847 | Cell | 2020 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/31955847 |
| Proximal tubule responses to injury: interrogation by single-cell transcriptomics. | Cippà PE, McMahon AP | Current opinion in nephrology and hypertension | 37074682 | Curr Opin Nephrol Hypertens | 2023 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/37074682 |
| Spatiotemporally-resolved mapping of RNA binding proteins via functional proximity labeling reveals a mitochondrial mRNA anchor promoting stress recovery. | Qin W, Myers SA, Carey DK, Carr SA, Ting AY | Nature communications | 34404792 | Nat Commun | 2021 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/34404792 |
| Coordination of tumor growth and host wasting by tumor-derived Upd3. | Ding G, Xiang X, Hu Y, Xiao G, Chen Y, Binari R, Comjean A, Li J, Rushworth E, Fu Z, Mohr SE, Perrimon N, Song W | Cell reports | 34407411 | Cell Rep | 2021 Aug 17 | https://www.ncbi.nlm.nih.gov/pubmed/34407411 |
| Transcription factor Acj6 controls dendrite targeting via a combinatorial cell-surface code. | Xie Q, Li J, Li H, Udeshi ND, Svinkina T, Orlin D, Kohani S, Guajardo R, Mani DR, Xu C, Li T, Han S, Wei W, Shuster SA, Luginbuhl DJ, Quake SR, Murthy SE, Ting AY, Carr SA, Luo L | Neuron | 35613619 | Neuron | 2022 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/35613619 |
| Shared and Distinctive Neighborhoods of Emerin and Lamin B Receptor Revealed by Proximity Labeling and Quantitative Proteomics. | Cheng LC, Zhang X, Abhinav K, Nguyen JA, Baboo S, Martinez-Bartolomé S, Branon TC, Ting AY, Loose E, Yates JR 3rd, Gerace L | Journal of proteome research | 35972904 | J Proteome Res | 2022 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/35972904 |
| In situ cell-type-specific cell-surface proteomic profiling in mice. | Shuster SA, Li J, Chon U, Sinantha-Hu MC, Luginbuhl DJ, Udeshi ND, Carey DK, Takeo YH, Xie Q, Xu C, Mani DR, Han S, Ting AY, Carr SA, Luo L | Neuron | 36220098 | Neuron | 2022 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/36220098 |
| Identifying Common Molecular Mechanisms in Experimental and Human Acute Kidney Injury. | Gerhardt LMS, McMahon AP | Seminars in nephrology | 36402654 | Semin Nephrol | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/36402654 |
| Dietary Amino Acids Promote Glucagon-like Hormone Release to Generate Novel Calcium Waves in Adipose Tissues. | He L, Ahmad M, Wu S, Luo S, Shi W, Guo X, Cao Y, Perrimon N | Research square | 38947048 | Res Sq | 2024 Jun 12 | https://www.ncbi.nlm.nih.gov/pubmed/38947048 |
| Cell-death induced immune response and coagulopathy promote cachexia in Drosophila. | Singh A, Hu Y, Lopes RF, Lane L, Woldemichael H, Xu C, Udeshi ND, Carr SA, Perrimon N | bioRxiv : the preprint server for biology | 39829769 | bioRxiv | 2025 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/39829769 |
| A genetic model for in vivo proximity labelling of the mammalian secretome. | Yang R, Meyer AS, Droujinine IA, Udeshi ND, Hu Y, Guo J, McMahon JA, Carey DK, Xu C, Fang Q, Sha J, Qin S, Rocco D, Wohlschlegel J, Ting AY, Carr SA, Perrimon N, McMahon AP | Open biology | 35946312 | Open Biol | 2022 Aug | https://www.ncbi.nlm.nih.gov/pubmed/35946312 |
| Deciphering molecular interactions by proximity labeling. | Qin W, Cho KF, Cavanagh PE, Ting AY | Nature methods | 33432242 | Nat Methods | 2021 Feb | https://www.ncbi.nlm.nih.gov/pubmed/33432242 |
| Proximity-dependent labeling methods for proteomic profiling in living cells: An update. | Bosch JA, Chen CL, Perrimon N | Wiley interdisciplinary reviews. Developmental biology | 32909689 | Wiley Interdiscip Rev Dev Biol | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/32909689 |
| Proximity-Labeling Reveals Novel Host and Parasite Proteins at the Toxoplasma Parasitophorous Vacuole Membrane. | Cygan AM, Jean Beltran PM, Mendoza AG, Branon TC, Ting AY, Carr SA, Boothroyd JC | mBio | 34749525 | mBio | 2021 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/34749525 |
| Proximity labeling in mammalian cells with TurboID and split-TurboID. | Cho KF, Branon TC, Udeshi ND, Myers SA, Carr SA, Ting AY | Nature protocols | 33139955 | Nat Protoc | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33139955 |
| Dynamic mapping of proteome trafficking within and between living cells by TransitID. | Qin W, Cheah JS, Xu C, Messing J, Freibaum BD, Boeynaems S, Taylor JP, Udeshi ND, Carr SA, Ting AY | Cell | 37385249 | Cell | 2023 Jul 20 | https://www.ncbi.nlm.nih.gov/pubmed/37385249 |
| Molecular and cellular mechanisms of teneurin signaling in synaptic partner matching. | Xu C, Li Z, Lyu C, Hu Y, McLaughlin CN, Wong KKL, Xie Q, Luginbuhl DJ, Li H, Udeshi ND, Svinkina T, Mani DR, Han S, Li T, Li Y, Guajardo R, Ting AY, Carr SA, Li J, Luo L | Cell | 38996528 | Cell | 2024 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/38996528 |
| Gold nanoparticles and tilt pairs to assess protein flexibility by cryo-electron microscopy. | Jagota M, Townshend RJL, Kang LW, Bushnell DA, Dror RO, Kornberg RD, Azubel M | Ultramicroscopy | 34062386 | Ultramicroscopy | 2021 Aug | https://www.ncbi.nlm.nih.gov/pubmed/34062386 |
| Taf2 mediates DNA binding of Taf14. | Klein BJ, Feigerle JT, Zhang J, Ebmeier CC, Fan L, Singh RK, Wang WW, Schmitt LR, Lee T, Hansen KC, Liu WR, Wang YX, Strahl BD, Anthony Weil P, Kutateladze TG | Nature communications | 35676274 | Nat Commun | 2022 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/35676274 |
| 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 |
| Structure of mitotic chromosomes. | Beel AJ, Azubel M, Matteï PJ, Kornberg RD | Molecular cell | 34520722 | Mol Cell | 2021 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/34520722 |
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| Severe lung disease characterized by lymphocytic bronchiolitis, alveolar ductitis, and emphysema (BADE) in industrial machine-manufacturing workers. | Cummings KJ, Stanton ML, Nett RJ, Segal LN, Kreiss K, Abraham JL, Colby TV, Franko AD, Green FHY, Sanyal S, Tallaksen RJ, Wendland D, Bachelder VD, Boylstein RJ, Park JH, Cox-Ganser JM, Virji MA, Crawford JA, Green BJ, LeBouf RF, Blaser MJ, Weissman DN | American journal of industrial medicine | 31461179 | Am J Ind Med | 2019 Nov | https://www.ncbi.nlm.nih.gov/pubmed/31461179 |
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| Description of two novel members of the family Erysipelotrichaceae: Ileibacterium valens gen. nov., sp. nov. and Dubosiella newyorkensis, gen. nov., sp. nov., from the murine intestine, and emendation to the description of Faecalibaculum rodentium. | Cox LM, Sohn J, Tyrrell KL, Citron DM, Lawson PA, Patel NB, Iizumi T, Perez-Perez GI, Goldstein EJC, Blaser MJ | International journal of systematic and evolutionary microbiology | 28100298 | Int J Syst Evol Microbiol | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28100298 |
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| Association between Helicobacter pylori and mortality in the NHANES III study. | Chen Y, Segers S, Blaser MJ | Gut | 23303440 | Gut | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23303440 |
| Distinct cutaneous bacterial assemblages in a sampling of South American Amerindians and US residents. | Blaser MJ, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Estrada I, Gao Z, Clemente JC, Costello EK, Knight R | The ISME journal | 22895161 | ISME J | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/22895161 |
| Enrichment of lung microbiome with supraglottic taxa is associated with increased pulmonary inflammation. | Segal LN, Alekseyenko AV, Clemente JC, Kulkarni R, Wu B, Gao Z, Chen H, Berger KI, Goldring RM, Rom WN, Blaser MJ, Weiden MD | Microbiome | 24450871 | Microbiome | 2013 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/24450871 |
| The Human Microbiome before Birth. | Blaser MJ, Dominguez-Bello MG | Cell host & microbe | 27832586 | Cell Host Microbe | 2016 Nov 9 | https://www.ncbi.nlm.nih.gov/pubmed/27832586 |
| A multivariate distance-based analytic framework for microbial interdependence association test in longitudinal study. | Zhang Y, Han SW, Cox LM, Li H | Genetic epidemiology | 28872698 | Genet Epidemiol | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28872698 |
| Seasonal cycling in the gut microbiome of the Hadza hunter-gatherers of Tanzania. | Smits SA, Leach J, Sonnenburg ED, Gonzalez CG, Lichtman JS, Reid G, Knight R, Manjurano A, Changalucha J, Elias JE, Dominguez-Bello MG, Sonnenburg JL | Science (New York, N.Y.) | 28839072 | Science | 2017 Aug 25 | https://www.ncbi.nlm.nih.gov/pubmed/28839072 |
| Antibiotics in early life alter the murine colonic microbiome and adiposity. | Cho I, Yamanishi S, Cox L, Methé BA, Zavadil J, Li K, Gao Z, Mahana D, Raju K, Teitler I, Li H, Alekseyenko AV, Blaser MJ | Nature | 22914093 | Nature | 2012 Aug 30 | https://www.ncbi.nlm.nih.gov/pubmed/22914093 |
| Predominance of Lactobacillus spp. Among Patients Who Do Not Acquire Multidrug-Resistant Organisms. | Araos R, Tai AK, Snyder GM, Blaser MJ, D'Agata EMC | Clinical infectious diseases : an official publication of the Infectious Diseases Society of America | 27358350 | Clin Infect Dis | 2016 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/27358350 |
| Randomised, double-blind, placebo-controlled trial with azithromycin selects for anti-inflammatory microbial metabolites in the emphysematous lung. | Segal LN, Clemente JC, Wu BG, Wikoff WR, Gao Z, Li Y, Ko JP, Rom WN, Blaser MJ, Weiden MD | Thorax | 27486204 | Thorax | 2017 Jan | https://www.ncbi.nlm.nih.gov/pubmed/27486204 |
| Enrichment of the lung microbiome with oral taxa is associated with lung inflammation of a Th17 phenotype. | Segal LN, Clemente JC, Tsay JC, Koralov SB, Keller BC, Wu BG, Li Y, Shen N, Ghedin E, Morris A, Diaz P, Huang L, Wikoff WR, Ubeda C, Artacho A, Rom WN, Sterman DH, Collman RG, Blaser MJ, Weiden MD | Nature microbiology | 27572644 | Nat Microbiol | 2016 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/27572644 |
| Harnessing the Early-Life Microbiota to Protect Children with Cystic Fibrosis. | Segal LN, Blaser MJ | The Journal of pediatrics | 25934071 | J Pediatr | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25934071 |
| Antibiotic use and its consequences for the normal microbiome. | Blaser MJ | Science (New York, N.Y.) | 27126037 | Science | 2016 Apr 29 | https://www.ncbi.nlm.nih.gov/pubmed/27126037 |
| Sparse and compositionally robust inference of microbial ecological networks. | Kurtz ZD, Müller CL, Miraldi ER, Littman DR, Blaser MJ, Bonneau RA | PLoS computational biology | 25950956 | PLoS Comput Biol | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25950956 |
| Longitudinal changes of microbiome composition and microbial metabolomics after surgical weight loss in individuals with obesity. | Shen N, Caixàs A, Ahlers M, Patel K, Gao Z, Dutia R, Blaser MJ, Clemente JC, Laferrère B | Surgery for obesity and related diseases : official journal of the American Society for Bariatric Surgery | 31296445 | Surg Obes Relat Dis | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31296445 |
| Comparative prevalence of Oxalobacter formigenes in three human populations. | PeBenito A, Nazzal L, Wang C, Li H, Jay M, Noya-Alarcon O, Contreras M, Lander O, Leach J, Dominguez-Bello MG, Blaser MJ | Scientific reports | 30679485 | Sci Rep | 2019 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/30679485 |
| Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment. | Nobel YR, Cox LM, Kirigin FF, Bokulich NA, Yamanishi S, Teitler I, Chung J, Sohn J, Barber CM, Goldfarb DS, Raju K, Abubucker S, Zhou Y, Ruiz VE, Li H, Mitreva M, Alekseyenko AV, Weinstock GM, Sodergren E, Blaser MJ | Nature communications | 26123276 | Nat Commun | 2015 Jun 30 | https://www.ncbi.nlm.nih.gov/pubmed/26123276 |
| A bitter aftertaste: unintended effects of artificial sweeteners on the gut microbiome. | Bokulich NA, Blaser MJ | Cell metabolism | 25440050 | Cell Metab | 2014 Nov 4 | https://www.ncbi.nlm.nih.gov/pubmed/25440050 |
| A highly adaptive microbiome-based association test for survival traits. | Koh H, Livanos AE, Blaser MJ, Li H | BMC genomics | 29558893 | BMC Genomics | 2018 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/29558893 |
| Fecal microbiota and bile acid interactions with systemic and adipose tissue metabolism in diet-induced weight loss of obese postmenopausal women. | Alemán JO, Bokulich NA, Swann JR, Walker JM, De Rosa JC, Battaglia T, Costabile A, Pechlivanis A, Liang Y, Breslow JL, Blaser MJ, Holt PR | Journal of translational medicine | 30176893 | J Transl Med | 2018 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/30176893 |
| Risk of Clostridium difficile Infection in Patients With Celiac Disease: A Population-Based Study. | Lebwohl B, Nobel YR, Green PHR, Blaser MJ, Ludvigsson JF | The American journal of gastroenterology | 29087398 | Am J Gastroenterol | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29087398 |
| Estimating and testing the microbial causal mediation effect with high-dimensional and compositional microbiome data. | Wang C, Hu J, Blaser MJ, Li H | Bioinformatics (Oxford, England) | 31329243 | Bioinformatics | 2020 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/31329243 |
| Are we using too many antibiotics during pregnancy? | Ledger WJ, Blaser MJ | BJOG : an international journal of obstetrics and gynaecology | 24118809 | BJOG | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24118809 |
| The nonfermentable dietary fiber hydroxypropyl methylcellulose modulates intestinal microbiota. | Cox LM, Cho I, Young SA, Anderson WH, Waters BJ, Hung SC, Gao Z, Mahana D, Bihan M, Alekseyenko AV, Methé BA, Blaser MJ | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 23154883 | FASEB J | 2013 Feb | https://www.ncbi.nlm.nih.gov/pubmed/23154883 |
| Pathways in microbe-induced obesity. | Cox LM, Blaser MJ | Cell metabolism | 23747247 | Cell Metab | 2013 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/23747247 |
| Candida krusei colonization in patients with gastrointestinal diseases. | Huong DT, Zhao Y, Nguyet NT, Loan TT, Binh NT, Thinh NV, Hanh NT, Perez-Perez GI, Perlin DS | Medical mycology | 23815437 | Med Mycol | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/23815437 |
| A brave new world: the lung microbiota in an era of change. | Segal LN, Blaser MJ | Annals of the American Thoracic Society | 24437400 | Ann Am Thorac Soc | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24437400 |
| Association between gastric Helicobacter pylori colonization and glycated hemoglobin levels. | Chen Y, Blaser MJ | The Journal of infectious diseases | 22427676 | J Infect Dis | 2012 Apr 15 | https://www.ncbi.nlm.nih.gov/pubmed/22427676 |
| Host demise as a beneficial function of indigenous microbiota in human hosts. | Blaser MJ, Webb GF | mBio | 25516618 | mBio | 2014 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/25516618 |
| Helicobacter pylori colonization and pregnancies complicated by preeclampsia, spontaneous prematurity, and small for gestational age birth. | den Hollander WJ, Schalekamp-Timmermans S, Holster IL, Jaddoe VW, Hofman A, Moll HA, Perez-Perez GI, Blaser MJ, Steegers EA, Kuipers EJ | Helicobacter | 27786400 | Helicobacter | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27786400 |
| The Role of CagA in the Gastric Biology of Helicobacter pylori. | Backert S, Blaser MJ | Cancer research | 27655809 | Cancer Res | 2016 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/27655809 |
| Antibiotic perturbation of the murine gut microbiome enhances the adiposity, insulin resistance, and liver disease associated with high-fat diet. | Mahana D, Trent CM, Kurtz ZD, Bokulich NA, Battaglia T, Chung J, Müller CL, Li H, Bonneau RA, Blaser MJ | Genome medicine | 27124954 | Genome Med | 2016 Apr 27 | https://www.ncbi.nlm.nih.gov/pubmed/27124954 |
| A single early-in-life macrolide course has lasting effects on murine microbial network topology and immunity. | Ruiz VE, Battaglia T, Kurtz ZD, Bijnens L, Ou A, Engstrand I, Zheng X, Iizumi T, Mullins BJ, Müller CL, Cadwell K, Bonneau R, Perez-Perez GI, Blaser MJ | Nature communications | 28894149 | Nat Commun | 2017 Sep 11 | https://www.ncbi.nlm.nih.gov/pubmed/28894149 |
| The gut microbiota influences skeletal muscle mass and function in mice. | Lahiri S, Kim H, Garcia-Perez I, Reza MM, Martin KA, Kundu P, Cox LM, Selkrig J, Posma JM, Zhang H, Padmanabhan P, Moret C, Gulyás B, Blaser MJ, Auwerx J, Holmes E, Nicholson J, Wahli W, Pettersson S | Science translational medicine | 31341063 | Sci Transl Med | 2019 Jul 24 | https://www.ncbi.nlm.nih.gov/pubmed/31341063 |
| Microbiome and malignancy. | Plottel CS, Blaser MJ | Cell host & microbe | 22018233 | Cell Host Microbe | 2011 Oct 20 | https://www.ncbi.nlm.nih.gov/pubmed/22018233 |
| The effect of H. pylori eradication on meal-associated changes in plasma ghrelin and leptin. | Francois F, Roper J, Joseph N, Pei Z, Chhada A, Shak JR, de Perez AZ, Perez-Perez GI, Blaser MJ | BMC gastroenterology | 21489301 | BMC Gastroenterol | 2011 Apr 14 | https://www.ncbi.nlm.nih.gov/pubmed/21489301 |
| Detecting a bacterial protein to understand cancer risk. | Blaser MJ | Clinical chemistry | 21586641 | Clin Chem | 2011 Sep | https://www.ncbi.nlm.nih.gov/pubmed/21586641 |
| Maturation of the gut microbiome and risk of asthma in childhood. | Stokholm J, Blaser MJ, Thorsen J, Rasmussen MA, Waage J, Vinding RK, Schoos AM, Kunøe A, Fink NR, Chawes BL, Bønnelykke K, Brejnrod AD, Mortensen MS, Al-Soud WA, Sørensen SJ, Bisgaard H | Nature communications | 29321519 | Nat Commun | 2018 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/29321519 |
| Evidence for Environmental-Human Microbiota Transfer at a Manufacturing Facility with Novel Work-related Respiratory Disease. | Wu BG, Kapoor B, Cummings KJ, Stanton ML, Nett RJ, Kreiss K, Abraham JL, Colby TV, Franko AD, Green FHY, Sanyal S, Clemente JC, Gao Z, Coffre M, Meyn P, Heguy A, Li Y, Sulaiman I, Borbet TC, Koralov SB, Tallaksen RJ, Wendland D, Bachelder VD, Boylstein RJ, Park JH, Cox-Ganser JM, Virji MA, Crawford JA, Edwards NT, Veillette M, Duchaine C, Warren K, Lundeen S, Blaser MJ, Segal LN | American journal of respiratory and critical care medicine | 32673495 | Am J Respir Crit Care Med | 2020 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/32673495 |
| The Presence of Oxalobacter formigenes in the Microbiome of Healthy Young Adults. | Barnett C, Nazzal L, Goldfarb DS, Blaser MJ | The Journal of urology | 26292041 | J Urol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26292041 |
| Risks of Antibiotic Exposures Early in Life on the Developing Microbiome. | Schulfer A, Blaser MJ | PLoS pathogens | 26135581 | PLoS Pathog | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26135581 |
| A powerful microbiome-based association test and a microbial taxa discovery framework for comprehensive association mapping. | Koh H, Blaser MJ, Li H | Microbiome | 28438217 | Microbiome | 2017 Apr 24 | https://www.ncbi.nlm.nih.gov/pubmed/28438217 |
| Microbially Produced Acetate: A "Missing Link" in Understanding Obesity? | Trent CM, Blaser MJ | Cell metabolism | 27411005 | Cell Metab | 2016 Jul 12 | https://www.ncbi.nlm.nih.gov/pubmed/27411005 |
| Development of the Human Mycobiome over the First Month of Life and across Body Sites. | Ward TL, Dominguez-Bello MG, Heisel T, Al-Ghalith G, Knights D, Gale CA | mSystems | 29546248 | mSystems | 2018 May-Jun | https://www.ncbi.nlm.nih.gov/pubmed/29546248 |
| Partial convergence of the human vaginal and rectal maternal microbiota in late gestation and early post-partum. | Shin H, Martinez KA 2nd, Henderson N, Jay M, Schweizer W, Bogaert D, Park G, Bokulich NA, Blaser MJ, Dominguez-Bello MG | NPJ biofilms and microbiomes | 37311781 | NPJ Biofilms Microbiomes | 2023 Jun 13 | https://www.ncbi.nlm.nih.gov/pubmed/37311781 |
| Computational analysis of Rho GTPase cycling. | Falkenberg CV, Loew LM | PLoS computational biology | 23326220 | PLoS Comput Biol | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23326220 |
| G Protein-regulated inducer of neurite outgrowth (GRIN) modulates Sprouty protein repression of mitogen-activated protein kinase (MAPK) activation by growth factor stimulation. | Hwangpo TA, Jordan JD, Premsrirut PK, Jayamaran G, Licht JD, Iyengar R, Neves SR | The Journal of biological chemistry | 22383529 | J Biol Chem | 2012 Apr 20 | https://www.ncbi.nlm.nih.gov/pubmed/22383529 |
| Systems biology of kidney diseases. | He JC, Chuang PY, Ma'ayan A, Iyengar R | Kidney international | 21881558 | Kidney Int | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21881558 |
| ERK regulation of phosphodiesterase 4 enhances dopamine-stimulated AMPA receptor membrane insertion. | Song RS, Massenburg B, Wenderski W, Jayaraman V, Thompson L, Neves SR | Proceedings of the National Academy of Sciences of the United States of America | 23986500 | Proc Natl Acad Sci U S A | 2013 Sep 17 | https://www.ncbi.nlm.nih.gov/pubmed/23986500 |
| Compartmentalized PDE4A5 Signaling Impairs Hippocampal Synaptic Plasticity and Long-Term Memory. | Havekes R, Park AJ, Tolentino RE, Bruinenberg VM, Tudor JC, Lee Y, Hansen RT, Guercio LA, Linton E, Neves-Zaph SR, Meerlo P, Baillie GS, Houslay MD, Abel T | The Journal of neuroscience : the official journal of the Society for Neuroscience | 27559174 | J Neurosci | 2016 Aug 24 | https://www.ncbi.nlm.nih.gov/pubmed/27559174 |
| Modeling of spatially-restricted intracellular signaling. | Neves SR | Wiley interdisciplinary reviews. Systems biology and medicine | 21766466 | Wiley Interdiscip Rev Syst Biol Med | 2012 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/21766466 |
| Obtaining and estimating kinetic parameters from the literature. | Neves SR | Science signaling | 21934111 | Sci Signal | 2011 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/21934111 |
| Developing models in virtual cell. | Neves SR | Science signaling | 21954293 | Sci Signal | 2011 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/21954293 |
| Interconnected network motifs control podocyte morphology and kidney function. | Azeloglu EU, Hardy SV, Eungdamrong NJ, Chen Y, Jayaraman G, Chuang PY, Fang W, Xiong H, Neves SR, Jain MR, Li H, Ma'ayan A, Gordon RE, He JC, Iyengar R | Science signaling | 24497609 | Sci Signal | 2014 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/24497609 |
| A biomimetic gelatin-based platform elicits a pro-differentiation effect on podocytes through mechanotransduction. | Hu M, Azeloglu EU, Ron A, Tran-Ba KH, Calizo RC, Tavassoly I, Bhattacharya S, Jayaraman G, Chen Y, Rabinovich V, Iyengar R, Hone JC, He JC, Kaufman LJ | Scientific reports | 28262745 | Sci Rep | 2017 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/28262745 |
| Pleomorphic ensembles: formation of large clusters composed of weakly interacting multivalent molecules. | Falkenberg CV, Blinov ML, Loew LM | Biophysical journal | 24314076 | Biophys J | 2013 Dec 3 | https://www.ncbi.nlm.nih.gov/pubmed/24314076 |
| Cell shape information is transduced through tension-independent mechanisms. | Ron A, Azeloglu EU, Calizo RC, Hu M, Bhattacharya S, Chen Y, Jayaraman G, Lee S, Neves-Zaph SR, Li H, Gordon RE, He JC, Hone JC, Iyengar R | Nature communications | 29247198 | Nat Commun | 2017 Dec 15 | https://www.ncbi.nlm.nih.gov/pubmed/29247198 |
| Modeling of spatial intracellular signaling events in neurons. | Wenderski WC, Neves SR | Methods in enzymology | 22289450 | Methods Enzymol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22289450 |
| Cross-regulation of Phosphodiesterase 1 and Phosphodiesterase 2 Activities Controls Dopamine-mediated Striatal α-Amino-3-hydroxy-5-methyl-4-isoxazolepropionic Acid (AMPA) Receptor Trafficking. | Song RS, Tolentino R, Sobie EA, Neves-Zaph SR | The Journal of biological chemistry | 27605670 | J Biol Chem | 2016 Oct 28 | https://www.ncbi.nlm.nih.gov/pubmed/27605670 |
| Insulin action and resistance in obesity and type 2 diabetes. | Czech MP | Nature medicine | 28697184 | Nat Med | 2017 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/28697184 |
| Gene silencing in adipose tissue macrophages regulates whole-body metabolism in obese mice. | Aouadi M, Tencerova M, Vangala P, Yawe JC, Nicoloro SM, Amano SU, Cohen JL, Czech MP | Proceedings of the National Academy of Sciences of the United States of America | 23630254 | Proc Natl Acad Sci U S A | 2013 May 14 | https://www.ncbi.nlm.nih.gov/pubmed/23630254 |
| Glucan particles for selective delivery of siRNA to phagocytic cells in mice. | Tesz GJ, Aouadi M, Prot M, Nicoloro SM, Boutet E, Amano SU, Goller A, Wang M, Guo CA, Salomon WE, Virbasius JV, Baum RA, O'Connor MJ Jr, Soto E, Ostroff GR, Czech MP | The Biochemical journal | 21418037 | Biochem J | 2011 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/21418037 |
| Activation of the Nlrp3 inflammasome in infiltrating macrophages by endocannabinoids mediates beta cell loss in type 2 diabetes. | Jourdan T, Godlewski G, Cinar R, Bertola A, Szanda G, Liu J, Tam J, Han T, Mukhopadhyay B, Skarulis MC, Ju C, Aouadi M, Czech MP, Kunos G | Nature medicine | 23955712 | Nat Med | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23955712 |
| Activated Kupffer cells inhibit insulin sensitivity in obese mice. | Tencerova M, Aouadi M, Vangala P, Nicoloro SM, Yawe JC, Cohen JL, Shen Y, Garcia-Menendez L, Pedersen DJ, Gallagher-Dorval K, Perugini RA, Gupta OT, Czech MP | FASEB journal : official publication of the Federation of American Societies for Experimental Biology | 25805830 | FASEB J | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25805830 |
| RNAi-based therapeutic strategies for metabolic disease. | Czech MP, Aouadi M, Tesz GJ | Nature reviews. Endocrinology | 21502982 | Nat Rev Endocrinol | 2011 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/21502982 |
| Lipid storage by adipose tissue macrophages regulates systemic glucose tolerance. | Aouadi M, Vangala P, Yawe JC, Tencerova M, Nicoloro SM, Cohen JL, Shen Y, Czech MP | American journal of physiology. Endocrinology and metabolism | 24986598 | Am J Physiol Endocrinol Metab | 2014 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/24986598 |
| A population of Langerin-positive dendritic cells in murine Peyer's patches involved in sampling β-glucan microparticles. | De Jesus M, Ostroff GR, Levitz SM, Bartling TR, Mantis NJ | PloS one | 24632738 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24632738 |
| CD40 deficiency in mice exacerbates obesity-induced adipose tissue inflammation, hepatic steatosis, and insulin resistance. | Guo CA, Kogan S, Amano SU, Wang M, Dagdeviren S, Friedline RH, Aouadi M, Kim JK, Czech MP | American journal of physiology. Endocrinology and metabolism | 23482447 | Am J Physiol Endocrinol Metab | 2013 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/23482447 |
| Local proliferation of macrophages contributes to obesity-associated adipose tissue inflammation. | Amano SU, Cohen JL, Vangala P, Tencerova M, Nicoloro SM, Yawe JC, Shen Y, Czech MP, Aouadi M | Cell metabolism | 24374218 | Cell Metab | 2014 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/24374218 |
| Insulin signalling mechanisms for triacylglycerol storage. | Czech MP, Tencerova M, Pedersen DJ, Aouadi M | Diabetologia | 23443243 | Diabetologia | 2013 May | https://www.ncbi.nlm.nih.gov/pubmed/23443243 |
| Peptide- and Amine-Modified Glucan Particles for the Delivery of Therapeutic siRNA. | Cohen JL, Shen Y, Aouadi M, Vangala P, Tencerova M, Amano SU, Nicoloro SM, Yawe JC, Czech MP | Molecular pharmaceutics | 26815386 | Mol Pharm | 2016 Mar 7 | https://www.ncbi.nlm.nih.gov/pubmed/26815386 |
| IL-1 signaling in obesity-induced hepatic lipogenesis and steatosis. | Negrin KA, Roth Flach RJ, DiStefano MT, Matevossian A, Friedline RH, Jung D, Kim JK, Czech MP | PloS one | 25216251 | PLoS One | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25216251 |
| β-Catenin-driven cancers require a YAP1 transcriptional complex for survival and tumorigenesis. | Rosenbluh J, Nijhawan D, Cox AG, Li X, Neal JT, Schafer EJ, Zack TI, Wang X, Tsherniak A, Schinzel AC, Shao DD, Schumacher SE, Weir BA, Vazquez F, Cowley GS, Root DE, Mesirov JP, Beroukhim R, Kuo CJ, Goessling W, Hahn WC | Cell | 23245941 | Cell | 2012 Dec 21 | https://www.ncbi.nlm.nih.gov/pubmed/23245941 |
| Reversible cell-cycle entry in adult kidney podocytes through regulated control of telomerase and Wnt signaling. | Shkreli M, Sarin KY, Pech MF, Papeta N, Chang W, Brockman SA, Cheung P, Lee E, Kuhnert F, Olson JL, Kuo CJ, Gharavi AG, D'Agati VD, Artandi SE | Nature medicine | 22138751 | Nat Med | 2011 Dec 4 | https://www.ncbi.nlm.nih.gov/pubmed/22138751 |
| Matrix interactions modulate neurotrophin-mediated neurite outgrowth and pathfinding. | Madl CM, Heilshorn SC | Neural regeneration research | 26170800 | Neural Regen Res | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/26170800 |
| Injectable Hydrogels with In Situ Double Network Formation Enhance Retention of Transplanted Stem Cells. | Cai L, Dewi RE, Heilshorn SC | Advanced functional materials | 26273242 | Adv Funct Mater | 2015 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/26273242 |
| Organoid modeling for cancer precision medicine. | Cantrell MA, Kuo CJ | Genome medicine | 25825593 | Genome Med | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25825593 |
| Chemotaxis of human induced pluripotent stem cell-derived endothelial cells. | Huang NF, Dewi RE, Okogbaa J, Lee JC, Jalilrufaihah A, Heilshorn SC, Cooke JP | American journal of translational research | 23977410 | Am J Transl Res | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23977410 |
| Partial proteasome inhibitors induce hair follicle growth by stabilizing β-catenin. | Yucel G, Van Arnam J, Means PC, Huntzicker E, Altindag B, Lara MF, Yuan J, Kuo C, Oro AE | Stem cells (Dayton, Ohio) | 23963711 | Stem Cells | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23963711 |
| Organoids as Models for Neoplastic Transformation. | Neal JT, Kuo CJ | Annual review of pathology | 26907527 | Annu Rev Pathol | 2016 May 23 | https://www.ncbi.nlm.nih.gov/pubmed/26907527 |
| Dual-stage growth factor release within 3D protein-engineered hydrogel niches promotes adipogenesis. | Greenwood-Goodwin M, Teasley ES, Heilshorn SC | Biomaterials science | 25309741 | Biomater Sci | 2014 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/25309741 |
| Hybrid elastin-like polypeptide-polyethylene glycol (ELP-PEG) hydrogels with improved transparency and independent control of matrix mechanics and cell ligand density. | Wang H, Cai L, Paul A, Enejder A, Heilshorn SC | Biomacromolecules | 25111283 | Biomacromolecules | 2014 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/25111283 |
| 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 |
| The intestinal stem cell markers Bmi1 and Lgr5 identify two functionally distinct populations. | Yan KS, Chia LA, Li X, Ootani A, Su J, Lee JY, Su N, Luo Y, Heilshorn SC, Amieva MR, Sangiorgi E, Capecchi MR, Kuo CJ | Proceedings of the National Academy of Sciences of the United States of America | 22190486 | Proc Natl Acad Sci U S A | 2012 Jan 10 | https://www.ncbi.nlm.nih.gov/pubmed/22190486 |
| Improving viability of stem cells during syringe needle flow through the design of hydrogel cell carriers. | Aguado BA, Mulyasasmita W, Su J, Lampe KJ, Heilshorn SC | Tissue engineering. Part A | 22011213 | Tissue Eng Part A | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22011213 |
| Avidity-controlled delivery of angiogenic peptides from injectable molecular-recognition hydrogels. | Mulyasasmita W, Cai L, Hori Y, Heilshorn SC | Tissue engineering. Part A | 24490588 | Tissue Eng Part A | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24490588 |
| Avidity-controlled hydrogels for injectable co-delivery of induced pluripotent stem cell-derived endothelial cells and growth factors. | Mulyasasmita W, Cai L, Dewi RE, Jha A, Ullmann SD, Luong RH, Huang NF, Heilshorn SC | Journal of controlled release : official journal of the Controlled Release Society | 24848744 | J Control Release | 2014 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/24848744 |
| Designing ECM-mimetic materials using protein engineering. | Cai L, Heilshorn SC | Acta biomaterialia | 24365704 | Acta Biomater | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24365704 |
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| Protein-engineered hydrogel encapsulation for 3-D culture of murine cochlea. | Chang DT, Chai R, DiMarco R, Heilshorn SC, Cheng AG | Otology & neurotology : official publication of the American Otological Society, American Neurotology Society [and] European Academy of Otology and Neurotology | 25111520 | Otol Neurotol | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25111520 |
| Small-molecule axon-polarization studies enabled by a shear-free microfluidic gradient generator. | Xu H, Ferreira MM, Heilshorn SC | Lab on a chip | 24781157 | Lab Chip | 2014 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/24781157 |
| Engineering of three-dimensional microenvironments to promote contractile behavior in primary intestinal organoids. | DiMarco RL, Su J, Yan KS, Dewi R, Kuo CJ, Heilshorn SC | Integrative biology : quantitative biosciences from nano to macro | 24343706 | Integr Biol (Camb) | 2014 Feb | https://www.ncbi.nlm.nih.gov/pubmed/24343706 |
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| Sustained in vitro intestinal epithelial culture within a Wnt-dependent stem cell niche. | Ootani A, Li X, Sangiorgi E, Ho QT, Ueno H, Toda S, Sugihara H, Fujimoto K, Weissman IL, Capecchi MR, Kuo CJ | Nature medicine | 19398967 | Nat Med | 2009 Jun | https://www.ncbi.nlm.nih.gov/pubmed/19398967 |
| One-pot Synthesis of Elastin-like Polypeptide Hydrogels with Grafted VEGF-Mimetic Peptides. | Cai L, Dinh CB, Heilshorn SC | Biomaterials science | 24729868 | Biomater Sci | 2014 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/24729868 |
| Spontaneous cardiomyocyte differentiation of mouse embryoid bodies regulated by hydrogel crosslink density. | Chung C, Pruitt BL, Heilshorn SC | Biomaterials science | 24748962 | Biomater Sci | 2013 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/24748962 |
| Molecular-level engineering of protein physical hydrogels for predictive sol-gel phase behavior. | Mulyasasmita W, Lee JS, Heilshorn SC | Biomacromolecules | 21861461 | Biomacromolecules | 2011 Oct 10 | https://www.ncbi.nlm.nih.gov/pubmed/21861461 |
| Interfollicular epidermal stem cells self-renew via autocrine Wnt signaling. | Lim X, Tan SH, Koh WL, Chau RM, Yan KS, Kuo CJ, van Amerongen R, Klein AM, Nusse R | Science (New York, N.Y.) | 24311688 | Science | 2013 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/24311688 |
| Presentation of BMP-2 mimicking peptides in 3D hydrogels directs cell fate commitment in osteoblasts and mesenchymal stem cells. | Madl CM, Mehta M, Duda GN, Heilshorn SC, Mooney DJ | Biomacromolecules | 24400664 | Biomacromolecules | 2014 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/24400664 |
| Adaptable hydrogel networks with reversible linkages for tissue engineering. | Wang H, Heilshorn SC | Advanced materials (Deerfield Beach, Fla.) | 25989348 | Adv Mater | 2015 Jul 1 | https://www.ncbi.nlm.nih.gov/pubmed/25989348 |
| Regulation of self-renewal and differentiation by the intestinal stem cell niche. | Yeung TM, Chia LA, Kosinski CM, Kuo CJ | Cellular and molecular life sciences : CMLS | 21509540 | Cell Mol Life Sci | 2011 Aug | https://www.ncbi.nlm.nih.gov/pubmed/21509540 |
| Matrix RGD ligand density and L1CAM-mediated Schwann cell interactions synergistically enhance neurite outgrowth. | Romano NH, Madl CM, Heilshorn SC | Acta biomaterialia | 25308870 | Acta Biomater | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25308870 |
| Microfluidic gradients reveal enhanced neurite outgrowth but impaired guidance within 3D matrices with high integrin ligand densities. | Romano NH, Lampe KJ, Xu H, Ferreira MM, Heilshorn SC | Small (Weinheim an der Bergstrasse, Germany) | 25315156 | Small | 2015 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/25315156 |
| Coproduction of healthcare service. | Batalden M, Batalden P, Margolis P, Seid M, Armstrong G, Opipari-Arrigan L, Hartung H | BMJ quality & safety | 26376674 | BMJ Qual Saf | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26376674 |
| Using a network organisational architecture to support the development of Learning Healthcare Systems. | Britto MT, Fuller SC, Kaplan HC, Kotagal U, Lannon C, Margolis PA, Muething SE, Schoettker PJ, Seid M | BMJ quality & safety | 29438072 | BMJ Qual Saf | 2018 Nov | https://www.ncbi.nlm.nih.gov/pubmed/29438072 |
| Co-Designing a Collaborative Chronic Care Network (C3N) for Inflammatory Bowel Disease: Development of Methods. | Seid M, Dellal G, Peterson LE, Provost L, Gloor PA, Fore DL, Margolis PA | JMIR human factors | 29472173 | JMIR Hum Factors | 2018 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/29472173 |
| Collaborative Chronic Care Networks (C3Ns) to transform chronic illness care. | Margolis PA, Peterson LE, Seid M | Pediatrics | 23729764 | Pediatrics | 2013 Jun | https://www.ncbi.nlm.nih.gov/pubmed/23729764 |
| Appreciating the Nuance of Daily Symptom Variation to Individualize Patient Care. | Adler J, Saeed SA, Eslick IS, Provost L, Margolis PA, Kaplan HC | EGEMS (Washington, DC) | 27376097 | EGEMS (Wash DC) | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/27376097 |
| Learning Health Systems as Facilitators of Precision Medicine. | Ramsey LB, Mizuno T, Vinks AA, Margolis PA | Clinical pharmacology and therapeutics | 27984650 | Clin Pharmacol Ther | 2017 Mar | https://www.ncbi.nlm.nih.gov/pubmed/27984650 |
| Engagement, peer production, and the learning healthcare system. | Seid M, Margolis PA, Opipari-Arrigan L | JAMA pediatrics | 24446048 | JAMA Pediatr | 2014 Mar | https://www.ncbi.nlm.nih.gov/pubmed/24446048 |
| What's in a name generator? Choosing the right name generators for social network surveys in healthcare quality and safety research. | Burt RS, Meltzer DO, Seid M, Borgert A, Chung JW, Colletti RB, Dellal G, Kahn SA, Kaplan HC, Peterson LE, Margolis P | BMJ quality & safety | 22942400 | BMJ Qual Saf | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22942400 |
| Health services innovation: the time is now. | Zuckerman B, Margolis PA, Mate KS | JAMA | 23512055 | JAMA | 2013 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/23512055 |
| Pilot Development of an Electronic Pediatric Inflammatory Bowel Disease Quiz Game. | Tung J, Grunow JE, Jacobs N | Journal of pediatric gastroenterology and nutrition | 25793902 | J Pediatr Gastroenterol Nutr | 2015 Sep | https://www.ncbi.nlm.nih.gov/pubmed/25793902 |
| A maturity grid assessment tool for learning networks. | Lannon C, Schuler CL, Seid M, Provost LP, Fuller S, Purcell D, Forrest CB, Margolis PA | Learning health systems | 33889737 | Learn Health Syst | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33889737 |
| Measuring engagement in a collaborative learning health system: The case of ImproveCareNow. | Hartley DM, Keck C, Havens M, Margolis PA, Seid M | Learning health systems | 33889734 | Learn Health Syst | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33889734 |
| Improved outcomes in a quality improvement collaborative for pediatric inflammatory bowel disease. | Crandall WV, Margolis PA, Kappelman MD, King EC, Pratt JM, Boyle BM, Duffy LF, Grunow JE, Kim SC, Leibowitz I, Schoen BT, Colletti RB, ImproveCareNow Collaborative | Pediatrics | 22412030 | Pediatrics | 2012 Apr | https://www.ncbi.nlm.nih.gov/pubmed/22412030 |
| "A Guide to Gutsy Living": Patient-Driven Development of a Pediatric Ostomy Toolkit. | David JG, Jofriet A, Seid M, Margolis PA, ImproveCareNow Pediatric IBD Learning Health System | Pediatrics | 29610402 | Pediatrics | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29610402 |
| Plasticity of basal cells during postnatal development in the rat epididymis. | Shum WW, Hill E, Brown D, Breton S | Reproduction (Cambridge, England) | 23960170 | Reproduction | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23960170 |
| High-resolution helium ion microscopy of epididymal epithelial cells and their interaction with spermatozoa. | Păunescu TG, Shum WW, Huynh C, Lechner L, Goetze B, Brown D, Breton S | Molecular human reproduction | 25015675 | Mol Hum Reprod | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25015675 |
| Establishment of cell-cell cross talk in the epididymis: control of luminal acidification. | Shum WW, Ruan YC, Da Silva N, Breton S | Journal of andrology | 21441423 | J Androl | 2011 Nov-Dec | https://www.ncbi.nlm.nih.gov/pubmed/21441423 |
| ROS1 signaling regulates epithelial differentiation in the epididymis. | Jun HJ, Roy J, Smith TB, Wood LB, Lane K, Woolfenden S, Punko D, Bronson RT, Haigis KM, Breton S, Charest A | Endocrinology | 24971615 | Endocrinology | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/24971615 |
| Epithelial basal cells are distinct from dendritic cells and macrophages in the mouse epididymis. | Shum WW, Smith TB, Cortez-Retamozo V, Grigoryeva LS, Roy JW, Hill E, Pittet MJ, Breton S, Da Silva N | Biology of reproduction | 24648397 | Biol Reprod | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24648397 |
| A dense network of dendritic cells populates the murine epididymis. | Da Silva N, Cortez-Retamozo V, Reinecker HC, Wildgruber M, Hill E, Brown D, Swirski FK, Pittet MJ, Breton S | Reproduction (Cambridge, England) | 21310816 | Reproduction | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21310816 |
| In vivo imaging of tracheal epithelial cells in mice during airway regeneration. | Kim JK, Vinarsky V, Wain J, Zhao R, Jung K, Choi J, Lam A, Pardo-Saganta A, Breton S, Rajagopal J, Yun SH | American journal of respiratory cell and molecular biology | 22984086 | Am J Respir Cell Mol Biol | 2012 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22984086 |
| Transepithelial projections from basal cells are luminal sensors in pseudostratified epithelia. | Shum WW, Da Silva N, McKee M, Smith PJ, Brown D, Breton S | Cell | 19070580 | Cell | 2008 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/19070580 |
| Quantitative and stoichiometric analysis of the microRNA content of exosomes. | Chevillet JR, Kang Q, Ruf IK, Briggs HA, Vojtech LN, Hughes SM, Cheng HH, Arroyo JD, Meredith EK, Gallichotte EN, Pogosova-Agadjanyan EL, Morrissey C, Stirewalt DL, Hladik F, Yu EY, Higano CS, Tewari M | Proceedings of the National Academy of Sciences of the United States of America | 25267620 | Proc Natl Acad Sci U S A | 2014 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/25267620 |
| Ultra-Specific Isolation of Circulating Tumor Cells Enables Rare-Cell RNA Profiling. | Jack RM, Grafton MM, Rodrigues D, Giraldez MD, Griffith C, Cieslak R, Zeinali M, Kumar Sinha C, Azizi E, Wicha M, Tewari M, Simeone DM, Nagrath S | Advanced science (Weinheim, Baden-Wurttemberg, Germany) | 27711257 | Adv Sci (Weinh) | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27711257 |
| Tumor characterization by ultrasound-release of multiple protein and microRNA biomarkers, preclinical and clinical evidence. | D'Souza AL, Chevillet JR, Ghanouni P, Yan X, Tewari M, Gambhir SS | PloS one | 29547636 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29547636 |
| Absolute quantification by droplet digital PCR versus analog real-time PCR. | Hindson CM, Chevillet JR, Briggs HA, Gallichotte EN, Ruf IK, Hindson BJ, Vessella RL, Tewari M | Nature methods | 23995387 | Nat Methods | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23995387 |
| A functional extracellular transcriptome in animals? Implications for biology, disease and medicine. | Tewari M | Genome biology | 25723626 | Genome Biol | 2015 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/25723626 |
| Circulating microRNAs and treatment response in the Phase II SWOG S0925 study for patients with new metastatic hormone-sensitive prostate cancer. | Cheng HH, Plets M, Li H, Higano CS, Tangen CM, Agarwal N, Vogelzang NJ, Hussain M, Thompson IM Jr, Tewari M, Yu EY | The Prostate | 29105802 | Prostate | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29105802 |
| Design and Analysis for Studying microRNAs in Human Disease: A Primer on -Omic Technologies. | Nair VS, Pritchard CC, Tewari M, Ioannidis JP | American journal of epidemiology | 24966218 | Am J Epidemiol | 2014 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/24966218 |
| Blood cell origin of circulating microRNAs: a cautionary note for cancer biomarker studies. | Pritchard CC, Kroh E, Wood B, Arroyo JD, Dougherty KJ, Miyaji MM, Tait JF, Tewari M | Cancer prevention research (Philadelphia, Pa.) | 22158052 | Cancer Prev Res (Phila) | 2012 Mar | https://www.ncbi.nlm.nih.gov/pubmed/22158052 |
| Exosomes in human semen carry a distinctive repertoire of small non-coding RNAs with potential regulatory functions. | Vojtech L, Woo S, Hughes S, Levy C, Ballweber L, Sauteraud RP, Strobl J, Westerberg K, Gottardo R, Tewari M, Hladik F | Nucleic acids research | 24838567 | Nucleic Acids Res | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24838567 |
| Post-transcriptional generation of miRNA variants by multiple nucleotidyl transferases contributes to miRNA transcriptome complexity. | Wyman SK, Knouf EC, Parkin RK, Fritz BR, Lin DW, Dennis LM, Krouse MA, Webster PJ, Tewari M | Genome research | 21813625 | Genome Res | 2011 Sep | https://www.ncbi.nlm.nih.gov/pubmed/21813625 |
| Intact microRNA analysis using high resolution mass spectrometry. | Kullolli M, Knouf E, Arampatzidou M, Tewari M, Pitteri SJ | Journal of the American Society for Mass Spectrometry | 24174127 | J Am Soc Mass Spectrom | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/24174127 |
| Plasma processing conditions substantially influence circulating microRNA biomarker levels. | Cheng HH, Yi HS, Kim Y, Kroh EM, Chien JW, Eaton KD, Goodman MT, Tait JF, Tewari M, Pritchard CC | PloS one | 23762257 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23762257 |
| Mutant DNA quantification by digital PCR can be confounded by heating during DNA fragmentation. | Kang Q, Parkin B, Giraldez MD, Tewari M | BioTechniques | 27071606 | Biotechniques | 2016 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27071606 |
| Argonaute2 complexes carry a population of circulating microRNAs independent of vesicles in human plasma. | Arroyo JD, Chevillet JR, Kroh EM, Ruf IK, Pritchard CC, Gibson DF, Mitchell PS, Bennett CF, Pogosova-Agadjanyan EL, Stirewalt DL, Tait JF, Tewari M | Proceedings of the National Academy of Sciences of the United States of America | 21383194 | Proc Natl Acad Sci U S A | 2011 Mar 22 | https://www.ncbi.nlm.nih.gov/pubmed/21383194 |
| Systematic design and functional analysis of artificial microRNAs. | Arroyo JD, Gallichotte EN, Tewari M | Nucleic acids research | 24598260 | Nucleic Acids Res | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24598260 |
| The human TUT1 nucleotidyl transferase as a global regulator of microRNA abundance. | Knouf EC, Wyman SK, Tewari M | PloS one | 23874977 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23874977 |
| MicroRNA profiling: approaches and considerations. | Pritchard CC, Cheng HH, Tewari M | Nature reviews. Genetics | 22510765 | Nat Rev Genet | 2012 Apr 18 | https://www.ncbi.nlm.nih.gov/pubmed/22510765 |
| Kinetic fingerprinting to identify and count single nucleic acids. | Johnson-Buck A, Su X, Giraldez MD, Zhao M, Tewari M, Walter NG | Nature biotechnology | 26098451 | Nat Biotechnol | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26098451 |
| Droplet Digital PCR for Absolute Quantification of Extracellular MicroRNAs in Plasma and Serum: Quantification of the Cancer Biomarker hsa-miR-141. | Giraldez MD, Chevillet JR, Tewari M | Methods in molecular biology (Clifton, N.J.) | 29717459 | Methods Mol Biol | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29717459 |
| Evaluating Serum Markers for Hormone Receptor-Negative Breast Cancer. | Schummer M, Thorpe J, Giraldez MD, Bergan L, Tewari M, Urban N | PloS one | 26565788 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26565788 |
| Circulating microRNA profiling identifies a subset of metastatic prostate cancer patients with evidence of cancer-associated hypoxia. | Cheng HH, Mitchell PS, Kroh EM, Dowell AE, Chéry L, Siddiqui J, Nelson PS, Vessella RL, Knudsen BS, Chinnaiyan AM, Pienta KJ, Morrissey C, Tewari M | PloS one | 23935962 | PLoS One | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23935962 |
| Release of Cell-free MicroRNA Tumor Biomarkers into the Blood Circulation with Pulsed Focused Ultrasound: A Noninvasive, Anatomically Localized, Molecular Liquid Biopsy. | Chevillet JR, Khokhlova TD, Giraldez MD, Schade GR, Starr F, Wang YN, Gallichotte EN, Wang K, Hwang JH, Tewari M | Radiology | 27802108 | Radiology | 2017 Apr | https://www.ncbi.nlm.nih.gov/pubmed/27802108 |
| Rapid, ultra low coverage copy number profiling of cell-free DNA as a precision oncology screening strategy. | Hovelson DH, Liu CJ, Wang Y, Kang Q, Henderson J, Gursky A, Brockman S, Ramnath N, Krauss JC, Talpaz M, Kandarpa M, Chugh R, Tuck M, Herman K, Grasso CS, Quist MJ, Feng FY, Haakenson C, Langmore J, Kamberov E, Tesmer T, Husain H, Lonigro RJ, Robinson D, Smith DC, Alva AS, Hussain MH, Chinnaiyan AM, Tewari M, Mills RE, Morgan TM, Tomlins SA | Oncotarget | 29163793 | Oncotarget | 2017 Oct 27 | https://www.ncbi.nlm.nih.gov/pubmed/29163793 |
| Platelet-Synthesized Testosterone in Men with Prostate Cancer Induces Androgen Receptor Signaling. | Zaslavsky AB, Gloeckner-Kalousek A, Adams M, Putluri N, Venghatakrishnan H, Li H, Morgan TM, Feng FY, Tewari M, Sreekumar A, Palapattu GS | Neoplasia (New York, N.Y.) | 26152357 | Neoplasia | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/26152357 |
| Evaluation of combination therapy against hepatitis C virus infection in human liver chimeric mice. | de Jong YP, Rice CM, Ploss A | Journal of hepatology | 21145816 | J Hepatol | 2011 May | https://www.ncbi.nlm.nih.gov/pubmed/21145816 |
| Antisense gets a grip on miR-122 in chimpanzees. | Branch AD, Rice CM | Science translational medicine | 20371461 | Sci Transl Med | 2010 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/20371461 |
| New horizons for studying human hepatotropic infections. | de Jong YP, Rice CM, Ploss A | The Journal of clinical investigation | 20179350 | J Clin Invest | 2010 Mar | https://www.ncbi.nlm.nih.gov/pubmed/20179350 |
| Persistent hepatitis C virus infection in microscale primary human hepatocyte cultures. | Ploss A, Khetani SR, Jones CT, Syder AJ, Trehan K, Gaysinskaya VA, Mu K, Ritola K, Rice CM, Bhatia SN | Proceedings of the National Academy of Sciences of the United States of America | 20133632 | Proc Natl Acad Sci U S A | 2010 Feb 16 | https://www.ncbi.nlm.nih.gov/pubmed/20133632 |
| Human hepatocyte PNPLA3-148M exacerbates rapid non-alcoholic fatty liver disease development in chimeric mice. | Kabbani M, Michailidis E, Steensels S, Fulmer CG, Luna JM, Le Pen J, Tardelli M, Razooky B, Ricardo-Lax I, Zou C, Zeck B, Stenzel AF, Quirk C, Foquet L, Ashbrook AW, Schneider WM, Belkaya S, Lalazar G, Liang Y, Pittman M, Devisscher L, Suemizu H, Theise ND, Chiriboga L, Cohen DE, Copenhaver R, Grompe M, Meuleman P, Ersoy BA, Rice CM, de Jong YP | Cell reports | 36103835 | Cell Rep | 2022 Sep 13 | https://www.ncbi.nlm.nih.gov/pubmed/36103835 |
| New Methods in Tissue Engineering: Improved Models for Viral Infection. | Ramanan V, Scull MA, Sheahan TP, Rice CM, Bhatia SN | Annual review of virology | 25893203 | Annu Rev Virol | 2014 Nov | https://www.ncbi.nlm.nih.gov/pubmed/25893203 |
| Development of a multiplex phenotypic cell-based high throughput screening assay to identify novel hepatitis C virus antivirals. | Kim HY, Li X, Jones CT, Rice CM, Garcia JM, Genovesio A, Hansen MA, Windisch MP | Antiviral research | 23660623 | Antiviral Res | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23660623 |
| Pluripotent stem cell-derived hepatocyte-like cells. | Schwartz RE, Fleming HE, Khetani SR, Bhatia SN | Biotechnology advances | 24440487 | Biotechnol Adv | 2014 Mar-Apr | https://www.ncbi.nlm.nih.gov/pubmed/24440487 |
| Expression of heterologous proteins flanked by NS3-4A cleavage sites within the hepatitis C virus polyprotein. | Horwitz JA, Dorner M, Friling T, Donovan BM, Vogt A, Loureiro J, Oh T, Rice CM, Ploss A | Virology | 23485372 | Virology | 2013 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/23485372 |
| Degradable hydrogels derived from PEG-diacrylamide for hepatic tissue engineering. | Stevens KR, Miller JS, Blakely BL, Chen CS, Bhatia SN | Journal of biomedical materials research. Part A | 25851120 | J Biomed Mater Res A | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25851120 |
| Modeling host interactions with hepatitis B virus using primary and induced pluripotent stem cell-derived hepatocellular systems. | Shlomai A, Schwartz RE, Ramanan V, Bhatta A, de Jong YP, Bhatia SN, Rice CM | Proceedings of the National Academy of Sciences of the United States of America | 25092305 | Proc Natl Acad Sci U S A | 2014 Aug 19 | https://www.ncbi.nlm.nih.gov/pubmed/25092305 |
| Hepatitis C virus induces interferon-λ and interferon-stimulated genes in primary liver cultures. | Marukian S, Andrus L, Sheahan TP, Jones CT, Charles ED, Ploss A, Rice CM, Dustin LB | Hepatology (Baltimore, Md.) | 21800339 | Hepatology | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21800339 |
| Micropatterned cell-cell interactions enable functional encapsulation of primary hepatocytes in hydrogel microtissues. | Li CY, Stevens KR, Schwartz RE, Alejandro BS, Huang JH, Bhatia SN | Tissue engineering. Part A | 24498910 | Tissue Eng Part A | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24498910 |
| Development of human CD4+FoxP3+ regulatory T cells in human stem cell factor-, granulocyte-macrophage colony-stimulating factor-, and interleukin-3-expressing NOD-SCID IL2Rγ(null) humanized mice. | Billerbeck E, Barry WT, Mu K, Dorner M, Rice CM, Ploss A | Blood | 21252091 | Blood | 2011 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/21252091 |
| Mopping up miRNA: An integrated HBV transcript disrupts liver homeostasis by sequestering miR-122. | Luna JM, Michailidis E, Rice CM | Journal of hepatology | 26541590 | J Hepatol | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26541590 |
| Micropatterned coculture of primary human hepatocytes and supportive cells for the study of hepatotropic pathogens. | March S, Ramanan V, Trehan K, Ng S, Galstian A, Gural N, Scull MA, Shlomai A, Mota MM, Fleming HE, Khetani SR, Rice CM, Bhatia SN | Nature protocols | 26584444 | Nat Protoc | 2015 Dec | https://www.ncbi.nlm.nih.gov/pubmed/26584444 |
| In situ expansion of engineered human liver tissue in a mouse model of chronic liver disease. | Stevens KR, Scull MA, Ramanan V, Fortin CL, Chaturvedi RR, Knouse KA, Xiao JW, Fung C, Mirabella T, Chen AX, McCue MG, Yang MT, Fleming HE, Chung K, de Jong YP, Chen CS, Rice CM, Bhatia SN | Science translational medicine | 28724577 | Sci Transl Med | 2017 Jul 19 | https://www.ncbi.nlm.nih.gov/pubmed/28724577 |
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| InVERT molding for scalable control of tissue microarchitecture. | Stevens KR, Ungrin MD, Schwartz RE, Ng S, Carvalho B, Christine KS, Chaturvedi RR, Li CY, Zandstra PW, Chen CS, Bhatia SN | Nature communications | 23673632 | Nat Commun | 2013 | https://www.ncbi.nlm.nih.gov/pubmed/23673632 |
| Characterization of nonprimate hepacivirus and construction of a functional molecular clone. | Scheel TK, Kapoor A, Nishiuchi E, Brock KV, Yu Y, Andrus L, Gu M, Renshaw RW, Dubovi EJ, McDonough SP, Van de Walle GR, Lipkin WI, Divers TJ, Tennant BC, Rice CM | Proceedings of the National Academy of Sciences of the United States of America | 25646476 | Proc Natl Acad Sci U S A | 2015 Feb 17 | https://www.ncbi.nlm.nih.gov/pubmed/25646476 |
| Identification of small molecules for human hepatocyte expansion and iPS differentiation. | Shan J, Schwartz RE, Ross NT, Logan DJ, Thomas D, Duncan SA, North TE, Goessling W, Carpenter AE, Bhatia SN | Nature chemical biology | 23728495 | Nat Chem Biol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23728495 |
| Viral genome imaging of hepatitis C virus to probe heterogeneous viral infection and responses to antiviral therapies. | Ramanan V, Trehan K, Ong ML, Luna JM, Hoffmann HH, Espiritu C, Sheahan TP, Chandrasekar H, Schwartz RE, Christine KS, Rice CM, van Oudenaarden A, Bhatia SN | Virology | 27128351 | Virology | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27128351 |
| Pan-Genotype Hepatitis E Virus Replication in Stem Cell-Derived Hepatocellular Systems. | Wu X, Dao Thi VL, Liu P, Takacs CN, Xiang K, Andrus L, Gouttenoire J, Moradpour D, Rice CM | Gastroenterology | 29277559 | Gastroenterology | 2018 Feb | https://www.ncbi.nlm.nih.gov/pubmed/29277559 |
| A genetically humanized mouse model for hepatitis C virus infection. | Dorner M, Horwitz JA, Robbins JB, Barry WT, Feng Q, Mu K, Jones CT, Schoggins JW, Catanese MT, Burton DR, Law M, Rice CM, Ploss A | Nature | 21654804 | Nature | 2011 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/21654804 |
| Barriers of hepatitis C virus interspecies transmission. | Sandmann L, Ploss A | Virology | 23217617 | Virology | 2013 Jan 5 | https://www.ncbi.nlm.nih.gov/pubmed/23217617 |
| Characterization of human antiviral adaptive immune responses during hepatotropic virus infection in HLA-transgenic human immune system mice. | Billerbeck E, Horwitz JA, Labitt RN, Donovan BM, Vega K, Budell WC, Koo GC, Rice CM, Ploss A | Journal of immunology (Baltimore, Md. : 1950) | 23833235 | J Immunol | 2013 Aug 15 | https://www.ncbi.nlm.nih.gov/pubmed/23833235 |
| Interferon lambda alleles predict innate antiviral immune responses and hepatitis C virus permissiveness. | Sheahan T, Imanaka N, Marukian S, Dorner M, Liu P, Ploss A, Rice CM | Cell host & microbe | 24528865 | Cell Host Microbe | 2014 Feb 12 | https://www.ncbi.nlm.nih.gov/pubmed/24528865 |
| Real-time imaging of hepatitis C virus infection using a fluorescent cell-based reporter system. | Jones CT, Catanese MT, Law LM, Khetani SR, Syder AJ, Ploss A, Oh TS, Schoggins JW, MacDonald MR, Bhatia SN, Rice CM | Nature biotechnology | 20118917 | Nat Biotechnol | 2010 Feb | https://www.ncbi.nlm.nih.gov/pubmed/20118917 |
| Bioengineering methods for analysis of cells in vitro. | Underhill GH, Galie P, Chen CS, Bhatia SN | Annual review of cell and developmental biology | 23057744 | Annu Rev Cell Dev Biol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/23057744 |
| Advances and challenges in studying hepatitis C virus in its native environment. | Sheahan T, Jones CT, Ploss A | Expert review of gastroenterology & hepatology | 20932139 | Expert Rev Gastroenterol Hepatol | 2010 Oct | https://www.ncbi.nlm.nih.gov/pubmed/20932139 |
| Teaching new tricks to an old foe: murinizing hepatitis C virus. | Gerold G, Rice CM, Ploss A | Hepatology (Baltimore, Md.) | 21105113 | Hepatology | 2010 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21105113 |
| Modeling hepatitis C virus infection using human induced pluripotent stem cells. | Schwartz RE, Trehan K, Andrus L, Sheahan TP, Ploss A, Duncan SA, Rice CM, Bhatia SN | Proceedings of the National Academy of Sciences of the United States of America | 22308485 | Proc Natl Acad Sci U S A | 2012 Feb 14 | https://www.ncbi.nlm.nih.gov/pubmed/22308485 |
| Hepatitis C virus infects rhesus macaque hepatocytes and simianized mice. | Scull MA, Shi C, de Jong YP, Gerold G, Ries M, von Schaewen M, Donovan BM, Labitt RN, Horwitz JA, Gaska JM, Hrebikova G, Xiao JW, Flatley B, Fung C, Chiriboga L, Walker CM, Evans DT, Rice CM, Ploss A | Hepatology (Baltimore, Md.) | 25820364 | Hepatology | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25820364 |
| Expansion, in vivo-ex vivo cycling, and genetic manipulation of primary human hepatocytes. | Michailidis E, Vercauteren K, Mancio-Silva L, Andrus L, Jahan C, Ricardo-Lax I, Zou C, Kabbani M, Park P, Quirk C, Pyrgaki C, Razooky B, Verhoye L, Zoluthkin I, Lu WY, Forbes SJ, Chiriboga L, Theise ND, Herzog RW, Suemizu H, Schneider WM, Shlomai A, Meuleman P, Bhatia SN, Rice CM, de Jong YP | Proceedings of the National Academy of Sciences of the United States of America | 31915293 | Proc Natl Acad Sci U S A | 2020 Jan 21 | https://www.ncbi.nlm.nih.gov/pubmed/31915293 |
| Targeting BCL-XL in fibrolamellar hepatocellular carcinoma. | Shebl B, Ng D, Lalazar G, Rosemore C, Finkelstein TM, Migler RD, Zheng G, Zhang P, Jiang CS, Qureshi A, Vaughan R, Yarchoan M, de Jong YP, Rice CM, Coffino P, Ortiz MV, Zhou D, Simon SM | JCI insight | 36073545 | JCI Insight | 2022 Sep 8 | https://www.ncbi.nlm.nih.gov/pubmed/36073545 |
| Mouse characteristics that affect establishing xenografts from hepatocellular carcinoma patient biopsies in the United States. | Zou C, El Dika I, Vercauteren KOA, Capanu M, Chou J, Shia J, Pilet J, Quirk C, Lalazar G, Andrus L, Kabbani M, Yaqubie A, Khalil D, Mergoub T, Chiriboga L, Rice CM, Abou-Alfa GK, de Jong YP | Cancer medicine | 34951132 | Cancer Med | 2022 Feb | https://www.ncbi.nlm.nih.gov/pubmed/34951132 |
| Understanding the hepatitis C virus life cycle paves the way for highly effective therapies. | Scheel TK, Rice CM | Nature medicine | 23836234 | Nat Med | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/23836234 |
| The ins and outs of hepatitis C virus entry and assembly. | Lindenbach BD, Rice CM | Nature reviews. Microbiology | 24018384 | Nat Rev Microbiol | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24018384 |
| Using goal-directed design to create a novel system for improving chronic illness care. | Fore D, Goldenhar LM, Margolis PA, Seid M | JMIR research protocols | 24168835 | JMIR Res Protoc | 2013 Oct 29 | https://www.ncbi.nlm.nih.gov/pubmed/24168835 |
| Single cell analysis of HCV-infected patient hepatocytes: the science is no longer science fiction. | Sheahan TP, Rice CM | Gastroenterology | 24176873 | Gastroenterology | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24176873 |
| Insufficient interleukin-12 signalling favours differentiation of human CD4(+) and CD8(+) T cells into GATA-3(+) and GATA-3(+) T-bet(+) subsets in humanized mice. | Billerbeck E, Labitt RN, Vega K, Frias-Staheli N, Dorner M, Xiao JW, Rice CM, Ploss A | Immunology | 24766459 | Immunology | 2014 Oct | https://www.ncbi.nlm.nih.gov/pubmed/24766459 |
| Virus associated malignancies: the role of viral hepatitis in hepatocellular carcinoma. | Shlomai A, de Jong YP, Rice CM | Seminars in cancer biology | 24457013 | Semin Cancer Biol | 2014 Jun | https://www.ncbi.nlm.nih.gov/pubmed/24457013 |
| Expression of paramyxovirus V proteins promotes replication and spread of hepatitis C virus in cultures of primary human fetal liver cells. | Andrus L, Marukian S, Jones CT, Catanese MT, Sheahan TP, Schoggins JW, Barry WT, Dustin LB, Trehan K, Ploss A, Bhatia SN, Rice CM | Hepatology (Baltimore, Md.) | 22144107 | Hepatology | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/22144107 |
| Identification, molecular cloning, and analysis of full-length hepatitis C virus transmitted/founder genotypes 1, 3, and 4. | Stoddard MB, Li H, Wang S, Saeed M, Andrus L, Ding W, Jiang X, Learn GH, von Schaewen M, Wen J, Goepfert PA, Hahn BH, Ploss A, Rice CM, Shaw GM | mBio | 25714714 | mBio | 2015 Feb 24 | https://www.ncbi.nlm.nih.gov/pubmed/25714714 |
| Analysis of Hepatitis C Virus Particle Heterogeneity in Immunodeficient Human Liver Chimeric fah-/- Mice. | Andreo U, de Jong YP, Scull MA, Xiao JW, Vercauteren K, Quirk C, Mommersteeg MC, Bergaya S, Menon A, Fisher EA, Rice CM | Cellular and molecular gastroenterology and hepatology | 28936471 | Cell Mol Gastroenterol Hepatol | 2017 Nov | https://www.ncbi.nlm.nih.gov/pubmed/28936471 |
| A Combination of Human Broadly Neutralizing Antibodies against Hepatitis B Virus HBsAg with Distinct Epitopes Suppresses Escape Mutations. | Wang Q, Michailidis E, Yu Y, Wang Z, Hurley AM, Oren DA, Mayer CT, Gazumyan A, Liu Z, Zhou Y, Schoofs T, Yao KH, Nieke JP, Wu J, Jiang Q, Zou C, Kabbani M, Quirk C, Oliveira T, Chhosphel K, Zhang Q, Schneider WM, Jahan C, Ying T, Horowitz J, Caskey M, Jankovic M, Robbiani DF, Wen Y, de Jong YP, Rice CM, Nussenzweig MC | Cell host & microbe | 32504577 | Cell Host Microbe | 2020 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/32504577 |
| Identification of Novel Therapeutic Targets for Fibrolamellar Carcinoma Using Patient-Derived Xenografts and Direct-from-Patient Screening. | Lalazar G, Requena D, Ramos-Espiritu L, Ng D, Bhola PD, de Jong YP, Wang R, Narayan NJC, Shebl B, Levin S, Michailidis E, Kabbani M, Vercauteren KOA, Hurley AM, Farber BA, Hammond WJ, Saltsman JA 3rd, Weinberg EM, Glickman JF, Lyons BA, Ellison J, Schadde E, Hertl M, Leiting JL, Truty MJ, Smoot RL, Tierney F, Kato T, Wendel HG, LaQuaglia MP, Rice CM, Letai A, Coffino P, Torbenson MS, Ortiz MV, Simon SM | Cancer discovery | 34127480 | Cancer Discov | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34127480 |
| Rapid casting of patterned vascular networks for perfusable engineered three-dimensional tissues. | Miller JS, Stevens KR, Yang MT, Baker BM, Nguyen DH, Cohen DM, Toro E, Chen AA, Galie PA, Yu X, Chaturvedi R, Bhatia SN, Chen CS | Nature materials | 22751181 | Nat Mater | 2012 Sep | https://www.ncbi.nlm.nih.gov/pubmed/22751181 |
| Development of humanized mouse models to study human malaria parasite infection. | Vaughan AM, Kappe SH, Ploss A, Mikolajczak SA | Future microbiology | 22568719 | Future Microbiol | 2012 May | https://www.ncbi.nlm.nih.gov/pubmed/22568719 |
| Superior In vivo Transduction of Human Hepatocytes Using Engineered AAV3 Capsid. | Vercauteren K, Hoffman BE, Zolotukhin I, Keeler GD, Xiao JW, Basner-Tschakarjan E, High KA, Ertl HC, Rice CM, Srivastava A, de Jong YP, Herzog RW | Molecular therapy : the journal of the American Society of Gene Therapy | 27019999 | Mol Ther | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27019999 |
| Humanized mice efficiently engrafted with fetal hepatoblasts and syngeneic immune cells develop human monocytes and NK cells. | Billerbeck E, Mommersteeg MC, Shlomai A, Xiao JW, Andrus L, Bhatta A, Vercauteren K, Michailidis E, Dorner M, Krishnan A, Charlton MR, Chiriboga L, Rice CM, de Jong YP | Journal of hepatology | 27151182 | J Hepatol | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27151182 |
| Insulin regulation of monoamine signaling: pathway to obesity. | Niswender KD, Daws LC, Avison MJ, Galli A | Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology | 21116253 | Neuropsychopharmacology | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/21116253 |
| Disruption of Daily Rhythms by High-Fat Diet Is Reversible. | Branecky KL, Niswender KD, Pendergast JS | PloS one | 26366733 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26366733 |
| Neuronal ablation of p-Akt at Ser473 leads to altered 5-HT1A/2A receptor function. | Saunders C, Siuta M, Robertson SD, Davis AR, Sauer J, Matthies HJG, Gresch PJ, Airey D, Lindsley CW, Schetz JA, Niswender KD, Veenstra-Vanderweele JM, Galli A | Neurochemistry international | 24090638 | Neurochem Int | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24090638 |
| Period determination in the food-entrainable and methamphetamine-sensitive circadian oscillator(s). | Pendergast JS, Oda GA, Niswender KD, Yamazaki S | Proceedings of the National Academy of Sciences of the United States of America | 22891330 | Proc Natl Acad Sci U S A | 2012 Aug 28 | https://www.ncbi.nlm.nih.gov/pubmed/22891330 |
| Imbalance in Resting State Functional Connectivity is Associated with Eating Behaviors and Adiposity in Children. | Chodkowski BA, Cowan RL, Niswender KD | Heliyon | 26878067 | Heliyon | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26878067 |
| Disgust proneness and associated neural substrates in obesity. | Watkins TJ, Di Iorio CR, Olatunji BO, Benningfield MM, Blackford JU, Dietrich MS, Bhatia M, Theiss JD, Salomon RM, Niswender K, Cowan RL | Social cognitive and affective neuroscience | 26454815 | Soc Cogn Affect Neurosci | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26454815 |
| The complex relationship between the light-entrainable and methamphetamine-sensitive circadian oscillators: evidence from behavioral studies of Period-mutant mice. | Pendergast JS, Niswender KD, Yamazaki S | The European journal of neuroscience | 23869717 | Eur J Neurosci | 2013 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23869717 |
| Rictor/mTORC2 facilitates central regulation of energy and glucose homeostasis. | Kocalis HE, Hagan SL, George L, Turney MK, Siuta MA, Laryea GN, Morris LC, Muglia LJ, Printz RL, Stanwood GD, Niswender KD | Molecular metabolism | 24944899 | Mol Metab | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24944899 |
| Neuron-specific deletion of peroxisome proliferator-activated receptor delta (PPARδ) in mice leads to increased susceptibility to diet-induced obesity. | Kocalis HE, Turney MK, Printz RL, Laryea GN, Muglia LJ, Davies SS, Stanwood GD, McGuinness OP, Niswender KD | PloS one | 22916190 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22916190 |
| Moving beyond energy homeostasis: new roles for glucagon-like peptide-1 in food and drug reward. | Reddy IA, Stanwood GD, Galli A | Neurochemistry international | 24140429 | Neurochem Int | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24140429 |
| Exendin-4 decreases amphetamine-induced locomotor activity. | Erreger K, Davis AR, Poe AM, Greig NH, Stanwood GD, Galli A | Physiology & behavior | 22465309 | Physiol Behav | 2012 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/22465309 |
| Central nervous system neuropeptide Y regulates mediators of hepatic phospholipid remodeling and very low-density lipoprotein triglyceride secretion via sympathetic innervation. | Rojas JM, Bruinstroop E, Printz RL, Alijagic-Boers A, Foppen E, Turney MK, George L, Beck-Sickinger AG, Kalsbeek A, Niswender KD | Molecular metabolism | 25737956 | Mol Metab | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25737956 |
| Dysregulation of the norepinephrine transporter sustains cortical hypodopaminergia and schizophrenia-like behaviors in neuronal rictor null mice. | Siuta MA, Robertson SD, Kocalis H, Saunders C, Gresch PJ, Khatri V, Shiota C, Kennedy JP, Lindsley CW, Daws LC, Polley DB, Veenstra-Vanderweele J, Stanwood GD, Magnuson MA, Niswender KD, Galli A | PLoS biology | 20543991 | PLoS Biol | 2010 Jun 8 | https://www.ncbi.nlm.nih.gov/pubmed/20543991 |
| Wheel-running activity modulates circadian organization and the daily rhythm of eating behavior. | Pendergast JS, Branecky KL, Huang R, Niswender KD, Yamazaki S | Frontiers in psychology | 24624109 | Front Psychol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24624109 |
| GLP-1 analog attenuates cocaine reward. | Graham DL, Erreger K, Galli A, Stanwood GD | Molecular psychiatry | 23089631 | Mol Psychiatry | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23089631 |
| High-fat diet acutely affects circadian organisation and eating behavior. | Pendergast JS, Branecky KL, Yang W, Ellacott KL, Niswender KD, Yamazaki S | The European journal of neuroscience | 23331763 | Eur J Neurosci | 2013 Apr | https://www.ncbi.nlm.nih.gov/pubmed/23331763 |
| Brief exposure to obesogenic diet disrupts brain dopamine networks. | Barry RL, Byun NE, Williams JM, Siuta MA, Tantawy MN, Speed NK, Saunders C, Galli A, Niswender KD, Avison MJ | PloS one | 29698491 | PLoS One | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/29698491 |
| Insulin signaling and addiction. | Daws LC, Avison MJ, Robertson SD, Niswender KD, Galli A, Saunders C | Neuropharmacology | 21420985 | Neuropharmacology | 2011 Dec | https://www.ncbi.nlm.nih.gov/pubmed/21420985 |
| Tissue-specific function of Period3 in circadian rhythmicity. | Pendergast JS, Niswender KD, Yamazaki S | PloS one | 22253927 | PLoS One | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22253927 |
| Impaired striatal Akt signaling disrupts dopamine homeostasis and increases feeding. | Speed N, Saunders C, Davis AR, Owens WA, Matthies HJ, Saadat S, Kennedy JP, Vaughan RA, Neve RL, Lindsley CW, Russo SJ, Daws LC, Niswender KD, Galli A | PloS one | 21969871 | PLoS One | 2011 | https://www.ncbi.nlm.nih.gov/pubmed/21969871 |
| Role for mTOR signaling and neuronal activity in morphine-induced adaptations in ventral tegmental area dopamine neurons. | Mazei-Robison MS, Koo JW, Friedman AK, Lansink CS, Robison AJ, Vinish M, Krishnan V, Kim S, Siuta MA, Galli A, Niswender KD, Appasani R, Horvath MC, Neve RL, Worley PF, Snyder SH, Hurd YL, Cheer JF, Han MH, Russo SJ, Nestler EJ | Neuron | 22196333 | Neuron | 2011 Dec 22 | https://www.ncbi.nlm.nih.gov/pubmed/22196333 |
| The mouse lymph node as an ectopic transplantation site for multiple tissues. | Komori J, Boone L, DeWard A, Hoppo T, Lagasse E | Nature biotechnology | 23000933 | Nat Biotechnol | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/23000933 |
| Ectopic transplantation sites for cell-based therapy. | DeWard AD, Komori J, Lagasse E | Current opinion in organ transplantation | 24480968 | Curr Opin Organ Transplant | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24480968 |
| Hyperthermia enhances mapatumumab-induced apoptotic death through ubiquitin-mediated degradation of cellular FLIP(long) in human colon cancer cells. | Song X, Kim SY, Zhou Z, Lagasse E, Kwon YT, Lee YJ | Cell death & disease | 23559011 | Cell Death Dis | 2013 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/23559011 |
| Towards Organs on Demand: Breakthroughs and Challenges in Models of Organogenesis. | Francipane MG, Lagasse E | Current pathobiology reports | 28979828 | Curr Pathobiol Rep | 2016 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28979828 |
| Identification of a candidate stem cell in human gallbladder. | Manohar R, Li Y, Fohrer H, Guzik L, Stolz DB, Chandran UR, LaFramboise WA, Lagasse E | Stem cell research | 25765520 | Stem Cell Res | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25765520 |
| Adult hepatocytes direct liver organogenesis through non-parenchymal cell recruitment in the kidney. | Utoh R, Komori J, Kuge H, Tatsumi K, Yamada M, Hirohashi S, Tsutsumi M, Amanuma T, Yoshioka A, Nakajima Y, Wake K, Okano T, Lagasse E, Ohashi K | Journal of hepatology | 29288124 | J Hepatol | 2018 Apr | https://www.ncbi.nlm.nih.gov/pubmed/29288124 |
| Identification and expansion of a unique stem cell population from adult mouse gallbladder. | Manohar R, Komori J, Guzik L, Stolz DB, Chandran UR, LaFramboise WA, Lagasse E | Hepatology (Baltimore, Md.) | 21793026 | Hepatology | 2011 Nov | https://www.ncbi.nlm.nih.gov/pubmed/21793026 |
| Potential barriers to human hepatocyte transplantation in MUP-uPAtg(⁺/⁺)Rag2⁻/⁻γC⁻/⁻ mice. | Komori J, DeWard AD, Gramignoli R, Strom SC, Fontes P, Lagasse E | Cell transplantation | 23998208 | Cell Transplant | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/23998208 |
| Deletion of Ptp4a3 reduces clonogenicity and tumor-initiation ability of colitis-associated cancer cells in mice. | Cramer JM, Zimmerman MW, Thompson T, Homanics GE, Lazo JS, Lagasse E | Stem cell research | 24950307 | Stem Cell Res | 2014 Jul | https://www.ncbi.nlm.nih.gov/pubmed/24950307 |
| Pluripotent Stem Cells to Rebuild a Kidney: The Lymph Node as a Possible Developmental Niche. | Francipane MG, Lagasse E | Cell transplantation | 26160801 | Cell Transplant | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26160801 |
| Maturation of embryonic tissues in a lymph node: a new approach for bioengineering complex organs. | Francipane MG, Lagasse E | Organogenesis | 25531035 | Organogenesis | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25531035 |
| Regenerating a kidney in a lymph node. | Francipane MG, Lagasse E | Pediatric nephrology (Berlin, Germany) | 26686504 | Pediatr Nephrol | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/26686504 |
| Kidney-in-a-lymph node: A novel organogenesis assay to model human renal development and test nephron progenitor cell fates. | Francipane MG, Han B, Oxburgh L, Sims-Lucas S, Li Z, Lagasse E | Journal of tissue engineering and regenerative medicine | 31267702 | J Tissue Eng Regen Med | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/31267702 |
| Cancer Stem Cells: A Moving Target. | Francipane MG, Chandler J, Lagasse E | Current pathobiology reports | 23914341 | Curr Pathobiol Rep | 2013 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/23914341 |
| Distinct human stem cell populations in small and large intestine. | Cramer JM, Thompson T, Geskin A, LaFramboise W, Lagasse E | PloS one | 25751518 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25751518 |
| Rescue of lethal hepatic failure by hepatized lymph nodes in mice. | Hoppo T, Komori J, Manohar R, Stolz DB, Lagasse E | Gastroenterology | 21070777 | Gastroenterology | 2011 Feb | https://www.ncbi.nlm.nih.gov/pubmed/21070777 |
| Cellular heterogeneity in the mouse esophagus implicates the presence of a nonquiescent epithelial stem cell population. | DeWard AD, Cramer J, Lagasse E | Cell reports | 25373907 | Cell Rep | 2014 Oct 23 | https://www.ncbi.nlm.nih.gov/pubmed/25373907 |
| The lymph node as a new site for kidney organogenesis. | Francipane MG, Lagasse E | Stem cells translational medicine | 25646529 | Stem Cells Transl Med | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25646529 |
| The cancer chemotherapeutic 5-fluorouracil is a potent Fusobacterium nucleatum inhibitor and its activity is modified by intratumoral microbiota. | LaCourse KD, Zepeda-Rivera M, Kempchinsky AG, Baryiames A, Minot SS, Johnston CD, Bullman S | Cell reports | 36384132 | Cell Rep | 2022 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/36384132 |
| Biosensor libraries harness large classes of binding domains for construction of allosteric transcriptional regulators. | Juárez JF, Lecube-Azpeitia B, Brown SL, Johnston CD, Church GM | Nature communications | 30082754 | Nat Commun | 2018 Aug 6 | https://www.ncbi.nlm.nih.gov/pubmed/30082754 |
| A distinct Fusobacterium nucleatum clade dominates the colorectal cancer niche. | Zepeda-Rivera M, Minot SS, Bouzek H, Wu H, Blanco-Míguez A, Manghi P, Jones DS, LaCourse KD, Wu Y, McMahon EF, Park SN, Lim YK, Kempchinsky AG, Willis AD, Cotton SL, Yost SC, Sicinska E, Kook JK, Dewhirst FE, Segata N, Bullman S, Johnston CD | Nature | 38509359 | Nature | 2024 Apr | https://www.ncbi.nlm.nih.gov/pubmed/38509359 |
| Expanding the rumen Prevotella collection: The description of Prevotella communis, sp. nov. of ovine origin. | Grabner E, Stare E, Fanedl L, Zorec M, Jones DS, Johnston CD, Avguštin G, Accetto T | Systematic and applied microbiology | 37295348 | Syst Appl Microbiol | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37295348 |
| Insights Obtained by Culturing Saccharibacteria With Their Bacterial Hosts. | Bor B, Collins AJ, Murugkar PP, Balasubramanian S, To TT, Hendrickson EL, Bedree JK, Bidlack FB, Johnston CD, Shi W, McLean JS, He X, Dewhirst FE | Journal of dental research | 32075512 | J Dent Res | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32075512 |
| INVADEseq to identify cell-adherent or invasive bacteria and the associated host transcriptome at single-cell-level resolution. | Galeano Niño JL, Wu H, LaCourse KD, Srinivasan H, Fitzgibbon M, Minot SS, Sather C, Johnston CD, Bullman S | Nature protocols | 37789194 | Nat Protoc | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37789194 |
| Helicobacter pylori Chronic Infection Selects for Effective Colonizers of Metaplastic Glands. | O'Brien VP, Jackson LK, Frick JP, Rodriguez Martinez AE, Jones DS, Johnston CD, Salama NR | mBio | 36598261 | mBio | 2023 Feb 28 | https://www.ncbi.nlm.nih.gov/pubmed/36598261 |
| The relationship between gastrointestinal cancers and the microbiota. | LaCourse KD, Johnston CD, Bullman S | The lancet. Gastroenterology & hepatology | 33743198 | Lancet Gastroenterol Hepatol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33743198 |
| Systematic evasion of the restriction-modification barrier in bacteria. | Johnston CD, Cotton SL, Rittling SR, Starr JR, Borisy GG, Dewhirst FE, Lemon KP | Proceedings of the National Academy of Sciences of the United States of America | 31097593 | Proc Natl Acad Sci U S A | 2019 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/31097593 |
| Corrigendum to "Expanding the rumen Prevotella collection: the description of Prevotella communis, sp. nov. of ovine origin" [Syst. Appl. Microbiol. 46(4) (2023) 126437]. | Grabner E, Stare E, Fanedl L, Zorec M, Jones DS, Johnston CD, Avguštin G, Accetto T | Systematic and applied microbiology | 37669882 | Syst Appl Microbiol | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37669882 |
| Fusobacterium sphaericum sp. nov. , isolated from a human colon tumor, adheres to colonic epithelial cells and induces IL-8 secretion. | Zepeda-Rivera MA, Eisele Y, Baryiames A, Wu H, Mengoni C, Piccinno G, McMahon EF, LaCourse KD, Jones DS, Hauner H, Minot SS, Segata N, Dewhirst FE, Johnston CD, Bullman S | bioRxiv : the preprint server for biology | 37398369 | bioRxiv | 2024 Aug 28 | https://www.ncbi.nlm.nih.gov/pubmed/37398369 |
| Genomic Stability and Genetic Defense Systems in Dolosigranulum pigrum, a Candidate Beneficial Bacterium from the Human Microbiome. | Flores Ramos S, Brugger SD, Escapa IF, Skeete CA, Cotton SL, Eslami SM, Gao W, Bomar L, Tran TH, Jones DS, Minot S, Roberts RJ, Johnston CD, Lemon KP | mSystems | 34546072 | mSystems | 2021 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/34546072 |
| Harnessing the microbiome to restore immunotherapy response. | Bullman S, Eggermont A, Johnston CD, Zitvogel L | Nature cancer | 35121929 | Nat Cancer | 2021 Dec | https://www.ncbi.nlm.nih.gov/pubmed/35121929 |
| Complete Genome Sequence of Morganella morganii CTX51T, Isolated from a Human Cecal Adenocarcinoma. | Stepanovica M, Zepeda-Rivera MA, McGlinchey AS, Baryiames AA, Jones DS, LaCourse KD, Bullman S, Johnston CD | Microbiology resource announcements | 35254123 | Microbiol Resour Announc | 2022 Apr 21 | https://www.ncbi.nlm.nih.gov/pubmed/35254123 |
| Effect of the intratumoral microbiota on spatial and cellular heterogeneity in cancer. | Galeano Niño JL, Wu H, LaCourse KD, Kempchinsky AG, Baryiames A, Barber B, Futran N, Houlton J, Sather C, Sicinska E, Taylor A, Minot SS, Johnston CD, Bullman S | Nature | 36385528 | Nature | 2022 Nov | https://www.ncbi.nlm.nih.gov/pubmed/36385528 |
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| Detecting DNA and RNA and Differentiating Single-Nucleotide Variations via Field-Effect Transistors. | Cheung KM, Abendroth JM, Nakatsuka N, Zhu B, Yang Y, Andrews AM, Weiss PS | Nano letters | 32706969 | Nano Lett | 2020 Aug 12 | https://www.ncbi.nlm.nih.gov/pubmed/32706969 |
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| Simultaneous serotonin and dopamine monitoring across timescales by rapid pulse voltammetry with partial least squares regression. | Movassaghi CS, Perrotta KA, Yang H, Iyer R, Cheng X, Dagher M, Fillol MA, Andrews AM | Analytical and bioanalytical chemistry | 34686897 | Anal Bioanal Chem | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34686897 |
| Conformal Ultrathin Film Metal-Organic Framework Analogues: Characterization of Growth, Porosity, and Electronic Transport. | Lau J, Trojniak AE, Maraugha MJ, VanZanten AJ, Osterbaan AJ, Serino AC, Ohnsorg ML, Cheung KM, Ashby DS, Weiss PS, Dunn BS, Anderson ME | Chemistry of materials : a publication of the American Chemical Society | 32536746 | Chem Mater | 2019 Nov 12 | https://www.ncbi.nlm.nih.gov/pubmed/32536746 |
| Chemical Lift-Off Lithography of Metal and Semiconductor Surfaces. | Cheung KM, Stemer DM, Zhao C, Young TD, Belling JN, Andrews AM, Weiss PS | ACS materials letters | 32405626 | ACS Mater Lett | 2020 Jan 6 | https://www.ncbi.nlm.nih.gov/pubmed/32405626 |
| Scalable Fabrication of Quasi-One-Dimensional Gold Nanoribbons for Plasmonic Sensing. | Zhao C, Xu X, Ferhan AR, Chiang N, Jackman JA, Yang Q, Liu W, Andrews AM, Cho NJ, Weiss PS | Nano letters | 32027140 | Nano Lett | 2020 Mar 11 | https://www.ncbi.nlm.nih.gov/pubmed/32027140 |
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| Dark Classics in Chemical Neuroscience: 3,4-Methylenedioxymethamphetamine. | Dunlap LE, Andrews AM, Olson DE | ACS chemical neuroscience | 30001118 | ACS Chem Neurosci | 2018 Oct 17 | https://www.ncbi.nlm.nih.gov/pubmed/30001118 |
| Large-Area, Ultrathin Metal-Oxide Semiconductor Nanoribbon Arrays Fabricated by Chemical Lift-Off Lithography. | Zhao C, Xu X, Bae SH, Yang Q, Liu W, Belling JN, Cheung KM, Rim YS, Yang Y, Andrews AM, Weiss PS | Nano letters | 30060654 | Nano Lett | 2018 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/30060654 |
| Small-Molecule Patterning via Prefunctionalized Alkanethiols. | Cao HH, Nakatsuka N, Deshayes S, Abendroth JM, Yang H, Weiss PS, Kasko AM, Andrews AM | Chemistry of materials : a publication of the American Chemical Society | 30828130 | Chem Mater | 2018 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/30828130 |
| Phenylalanine Monitoring via Aptamer-Field-Effect Transistor Sensors. | Cheung KM, Yang KA, Nakatsuka N, Zhao C, Ye M, Jung ME, Yang H, Weiss PS, Stojanović MN, Andrews AM | ACS sensors | 31631652 | ACS Sens | 2019 Dec 27 | https://www.ncbi.nlm.nih.gov/pubmed/31631652 |
| Aptamer Recognition of Multiplexed Small-Molecule-Functionalized Substrates. | Nakatsuka N, Cao HH, Deshayes S, Melkonian AL, Kasko AM, Weiss PS, Andrews AM | ACS applied materials & interfaces | 29851335 | ACS Appl Mater Interfaces | 2018 Jul 18 | https://www.ncbi.nlm.nih.gov/pubmed/29851335 |
| Spin-Dependent Ionization of Chiral Molecular Films. | Abendroth JM, Cheung KM, Stemer DM, El Hadri MS, Zhao C, Fullerton EE, Weiss PS | Journal of the American Chemical Society | 30734553 | J Am Chem Soc | 2019 Mar 6 | https://www.ncbi.nlm.nih.gov/pubmed/30734553 |
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| Wearable aptamer-field-effect transistor sensing system for noninvasive cortisol monitoring. | Wang B, Zhao C, Wang Z, Yang KA, Cheng X, Liu W, Yu W, Lin S, Zhao Y, Cheung KM, Lin H, Hojaiji H, Weiss PS, Stojanović MN, Tomiyama AJ, Andrews AM, Emaminejad S | Science advances | 34985954 | Sci Adv | 2022 Jan 7 | https://www.ncbi.nlm.nih.gov/pubmed/34985954 |
| Interfacing with the Brain: How Nanotechnology Can Contribute. | Ahmed AAA, Alegret N, Almeida B, Alvarez-Puebla R, Andrews AM, Ballerini L, Barrios-Capuchino JJ, Becker C, Blick RH, Bonakdar S, Chakraborty I, Chen X, Cheon J, Chilla G, Coelho Conceicao AL, Delehanty J, Dulle M, Efros AL, Epple M, Fedyk M, Feliu N, Feng M, Fernández-Chacón R, Fernandez-Cuesta I, Fertig N, Förster S, Garrido JA, George M, Guse AH, Hampp N, Harberts J, Han J, Heekeren HR, Hofmann UG, Holzapfel M, Hosseinkazemi H, Huang Y, Huber P, Hyeon T, Ingebrandt S, Ienca M, Iske A, Kang Y, Kasieczka G, Kim DH, Kostarelos K, Lee JH, Lin KW, Liu S, Liu X, Liu Y, Lohr C, Mailänder V, Maffongelli L, Megahed S, Mews A, Mutas M, Nack L, Nakatsuka N, Oertner TG, Offenhäusser A, Oheim M, Otange B, Otto F, Patrono E, Peng B, Picchiotti A, Pierini F, Pötter-Nerger M, Pozzi M, Pralle A, Prato M, Qi B, Ramos-Cabrer P, Genger UR, Ritter N, Rittner M, Roy S, Santoro F, Schuck NW, Schulz F, Şeker E, Skiba M, Sosniok M, Stephan H, Wang R, Wang T, Wegner KD, Weiss PS, Xu M, Yang C, Zargarian SS, Zeng Y, Zhou Y, Zhu D, Zierold R, Parak WJ | ACS nano | 40063703 | ACS Nano | 2025 Mar 25 | https://www.ncbi.nlm.nih.gov/pubmed/40063703 |
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| Optogenetic Stimulation of Midbrain Dopamine Neurons Produces Striatal Serotonin Release. | Dagher M, Perrotta KA, Erwin SA, Hachisuka A, Iyer R, Masmanidis SC, Yang H, Andrews AM | ACS chemical neuroscience | 35312275 | ACS Chem Neurosci | 2022 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/35312275 |
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| Flexible Multiplexed In(2)O(3) Nanoribbon Aptamer-Field-Effect Transistors for Biosensing. | Liu Q, Zhao C, Chen M, Liu Y, Zhao Z, Wu F, Li Z, Weiss PS, Andrews AM, Zhou C | iScience | 33083757 | iScience | 2020 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/33083757 |
| SeroWare: An Open-Source Software Suite for Voltammetry Data Acquisition and Analysis. | Movassaghi CS, Iyer R, Curry ME, Wesely ME, Fillol MA, Andrews AM | ACS chemical neuroscience | 39993240 | ACS Chem Neurosci | 2025 Mar 5 | https://www.ncbi.nlm.nih.gov/pubmed/39993240 |
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| Improved genetically encoded near-infrared fluorescent calcium ion indicators for in vivo imaging. | Qian Y, Cosio DMO, Piatkevich KD, Aufmkolk S, Su WC, Celiker OT, Schohl A, Murdock MH, Aggarwal A, Chang YF, Wiseman PW, Ruthazer ES, Boyden ES, Campbell RE | PLoS biology | 33232322 | PLoS Biol | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33232322 |
| Water-Soluble Luminescent Silicon Nanocrystals by Plasma-Induced Acrylic Acid Grafting and PEGylation. | Li Z, Mahajan A, Andaraarachchi HP, Lee Y, Kortshagen UR | ACS applied bio materials | 35014827 | ACS Appl Bio Mater | 2022 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/35014827 |
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| Alcohol Drinking Without Meals Is Associated With Risk of Gastrointestinal Cancers, Including Early-Onset Cases. | Shi M, Ahmedin NJ, Zong X, Yilmaz ӦH, Bishehsari F, Cao Y | Gastroenterology | 37977310 | Gastroenterology | 2024 Feb | https://www.ncbi.nlm.nih.gov/pubmed/37977310 |
| Circadian transcriptome of pancreatic adenocarcinoma unravels chronotherapeutic targets. | Sharma D, Adnan D, Abdel-Reheem MK, Anafi RC, Leary DD, Bishehsari F | JCI insight | 38716727 | JCI Insight | 2024 May 8 | https://www.ncbi.nlm.nih.gov/pubmed/38716727 |
| Early-onset Colon Cancer Shows a Distinct Intestinal Microbiome and a Host-Microbe Interaction. | Adnan D, Trinh JQ, Sharma D, Alsayid M, Bishehsari F | Cancer prevention research (Philadelphia, Pa.) | 37967575 | Cancer Prev Res (Phila) | 2024 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/37967575 |
| Patient-Derived Organoids as Therapy Screening Platforms in Cancer Patients. | Khorsandi D, Yang JW, Foster S, Khosravi S, Hosseinzadeh Kouchehbaghi N, Zarei F, Lee YB, Runa F, Gangrade A, Voskanian L, Adnan D, Zhu Y, Wang Z, Jucaud V, Dokmeci MR, Shen X, Bishehsari F, Kelber JA, Khademhosseini A, de Barros NR | Advanced healthcare materials | 38359321 | Adv Healthc Mater | 2024 Aug | https://www.ncbi.nlm.nih.gov/pubmed/38359321 |
| Protein design and variant prediction using autoregressive generative models. | Shin JE, Riesselman AJ, Kollasch AW, McMahon C, Simon E, Sander C, Manglik A, Kruse AC, Marks DS | Nature communications | 33893299 | Nat Commun | 2021 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/33893299 |
| The M3 Muscarinic Acetylcholine Receptor Can Signal through Multiple G Protein Families. | Smith JS, Hilibrand AS, Skiba MA, Dates AN, Calvillo-Miranda VG, Kruse AC | Molecular pharmacology | 38641412 | Mol Pharmacol | 2024 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/38641412 |
| Proteome-wide model for human disease genetics. | Orenbuch R, Shearer CA, Kollasch AW, Spinner HD, Hopf TA, van Niekerk L, Franceschi D, Dias M, Frazer J, Marks DS | medRxiv : the preprint server for health sciences | 38076790 | medRxiv | 2025 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/38076790 |
| Deep generative modeling of the human proteome reveals over a hundred novel genes involved in rare genetic disorders. | Orenbuch R, Kollasch AW, Spinner HD, Shearer CA, Hopf TA, Franceschi D, Dias M, Frazer J, Marks DS | Research square | 38260496 | Res Sq | 2024 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/38260496 |
| Rapidly inducible yeast surface display for antibody evolution with OrthoRep. | Paulk AM, Williams RL, Liu CC | bioRxiv : the preprint server for biology | 38826191 | bioRxiv | 2024 May 24 | https://www.ncbi.nlm.nih.gov/pubmed/38826191 |
| Evolutionary-Scale Enzymology Enables Biochemical Constant Prediction Across a Multi-Peaked Catalytic Landscape. | Muir DF, Asper GPR, Notin P, Posner JA, Marks DS, Keiser MJ, Pinney MM | bioRxiv : the preprint server for biology | 39484523 | bioRxiv | 2024 Oct 25 | https://www.ncbi.nlm.nih.gov/pubmed/39484523 |
| Continuous evolution of user-defined genes at 1 million times the genomic mutation rate. | Rix G, Williams RL, Hu VJ, Spinner A, Pisera AO, Marks DS, Liu CC | Science (New York, N.Y.) | 39509492 | Science | 2024 Nov 8 | https://www.ncbi.nlm.nih.gov/pubmed/39509492 |
| Rapid generation of potent antibodies by autonomous hypermutation in yeast. | Wellner A, McMahon C, Gilman MSA, Clements JR, Clark S, Nguyen KM, Ho MH, Shin JE, Feldman J, Hauser BM, Caradonna TM, Wingler LM, Schmidt AG, Marks DS, Abraham J, Kruse AC, Liu CC | bioRxiv : the preprint server for biology | 33200136 | bioRxiv | 2020 Nov 11 | https://www.ncbi.nlm.nih.gov/pubmed/33200136 |
| An Atlas of Variant Effects to understand the genome at nucleotide resolution. | Fowler DM, Adams DJ, Gloyn AL, Hahn WC, Marks DS, Muffley LA, Neal JT, Roth FP, Rubin AF, Starita LM, Hurles ME | Genome biology | 37394429 | Genome Biol | 2023 Jul 3 | https://www.ncbi.nlm.nih.gov/pubmed/37394429 |
| An in silico method to assess antibody fragment polyreactivity. | Harvey EP, Shin JE, Skiba MA, Nemeth GR, Hurley JD, Wellner A, Shaw AY, Miranda VG, Min JK, Liu CC, Marks DS, Kruse AC | Nature communications | 36477674 | Nat Commun | 2022 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/36477674 |
| Learning from prepandemic data to forecast viral escape. | Thadani NN, Gurev S, Notin P, Youssef N, Rollins NJ, Ritter D, Sander C, Gal Y, Marks DS | Nature | 37821700 | Nature | 2023 Oct | https://www.ncbi.nlm.nih.gov/pubmed/37821700 |
| Epitope-directed selection of GPCR nanobody ligands with evolvable function. | Skiba MA, Canavan C, Nemeth GR, Liu J, Kanso A, Kruse AC | Proceedings of the National Academy of Sciences of the United States of America | 40067891 | Proc Natl Acad Sci U S A | 2025 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/40067891 |
| Interaction specificity of clustered protocadherins inferred from sequence covariation and structural analysis. | Nicoludis JM, Green AG, Walujkar S, May EJ, Sotomayor M, Marks DS, Gaudet R | Proceedings of the National Academy of Sciences of the United States of America | 31431536 | Proc Natl Acad Sci U S A | 2019 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/31431536 |
| Antibodies Expand the Scope of Angiotensin Receptor Pharmacology. | Skiba MA, Sterling SM, Rawson S, Gilman MSA, Xu H, Nemeth GR, Hurley JD, Shen P, Staus DP, Kim J, McMahon C, Lehtinen MK, Wingler LM, Kruse AC | bioRxiv : the preprint server for biology | 37662341 | bioRxiv | 2023 Aug 24 | https://www.ncbi.nlm.nih.gov/pubmed/37662341 |
| Continuous evolution of user-defined genes at 1-million-times the genomic mutation rate. | Rix G, Williams RL, Spinner H, Hu VJ, Marks DS, Liu CC | bioRxiv : the preprint server for biology | 38014077 | bioRxiv | 2023 Nov 14 | https://www.ncbi.nlm.nih.gov/pubmed/38014077 |
| The relaxin receptor RXFP1 signals through a mechanism of autoinhibition. | Erlandson SC, Rawson S, Osei-Owusu J, Brock KP, Liu X, Paulo JA, Mintseris J, Gygi SP, Marks DS, Cong X, Kruse AC | Nature chemical biology | 37081311 | Nat Chem Biol | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37081311 |
| Guidelines for releasing a variant effect predictor. | Livesey BJ, Badonyi M, Dias M, Frazer J, Kumar S, Lindorff-Larsen K, McCandlish DM, Orenbuch R, Shearer CA, Muffley L, Foreman J, Glazer AM, Lehner B, Marks DS, Roth FP, Rubin AF, Starita LM, Marsh JA | ArXiv | 38699161 | ArXiv | 2024 Apr 16 | https://www.ncbi.nlm.nih.gov/pubmed/38699161 |
| Ultra-Efficient Integration of Gene Libraries onto Yeast Cytosolic Plasmids. | Pisera A, Yu Y, Williams RL, Liu CC | bioRxiv : the preprint server for biology | 39651169 | bioRxiv | 2024 Nov 30 | https://www.ncbi.nlm.nih.gov/pubmed/39651169 |
| Co-evolution of interacting proteins through non-contacting and non-specific mutations. | Ding D, Green AG, Wang B, Lite TV, Weinstein EN, Marks DS, Laub MT | Nature ecology & evolution | 35361892 | Nat Ecol Evol | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35361892 |
| Rapid generation of potent antibodies by autonomous hypermutation in yeast. | Wellner A, McMahon C, Gilman MSA, Clements JR, Clark S, Nguyen KM, Ho MH, Hu VJ, Shin JE, Feldman J, Hauser BM, Caradonna TM, Wingler LM, Schmidt AG, Marks DS, Abraham J, Kruse AC, Liu CC | Nature chemical biology | 34168368 | Nat Chem Biol | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34168368 |
| Antibodies expand the scope of angiotensin receptor pharmacology. | Skiba MA, Sterling SM, Rawson S, Zhang S, Xu H, Jiang H, Nemeth GR, Gilman MSA, Hurley JD, Shen P, Staus DP, Kim J, McMahon C, Lehtinen MK, Rockman HA, Barth P, Wingler LM, Kruse AC | Nature chemical biology | 38744986 | Nat Chem Biol | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/38744986 |
| Discovery of VH domains that allosterically inhibit ENPP1. | Solomon PE, Bracken CJ, Carozza JA, Wang H, Young EP, Wellner A, Liu CC, Sweet-Cordero EA, Li L, Wells JA | Nature chemical biology | 37400538 | Nat Chem Biol | 2024 Jan | https://www.ncbi.nlm.nih.gov/pubmed/37400538 |
| Protein design using structure-based residue preferences. | Ding D, Shaw AY, Sinai S, Rollins N, Prywes N, Savage DF, Laub MT, Marks DS | Nature communications | 38388493 | Nat Commun | 2024 Feb 22 | https://www.ncbi.nlm.nih.gov/pubmed/38388493 |
| ProteinNPT: Improving Protein Property Prediction and Design with Non-Parametric Transformers. | Notin P, Marks DS, Weitzman R, Gal Y | bioRxiv : the preprint server for biology | 38106034 | bioRxiv | 2023 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/38106034 |
| ProteinGym: Large-Scale Benchmarks for Protein Design and Fitness Prediction. | Notin P, Kollasch AW, Ritter D, van Niekerk L, Paul S, Spinner H, Rollins N, Shaw A, Weitzman R, Frazer J, Dias M, Franceschi D, Orenbuch R, Gal Y, Marks DS | bioRxiv : the preprint server for biology | 38106144 | bioRxiv | 2023 Dec 8 | https://www.ncbi.nlm.nih.gov/pubmed/38106144 |
| C. elegans Dicer acts with the RIG-I-like helicase DRH-1 and RDE-4 to cleave dsRNA. | Consalvo CD, Aderounmu AM, Donelick HM, Aruscavage PJ, Eckert DM, Shen PS, Bass BL | bioRxiv : the preprint server for biology | 37790392 | bioRxiv | 2024 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/37790392 |
| Caenorhabditis elegans Dicer acts with the RIG-I-like helicase DRH-1 and RDE-4 to cleave dsRNA. | Consalvo CD, Aderounmu AM, Donelick HM, Aruscavage PJ, Eckert DM, Shen PS, Bass BL | eLife | 38747717 | Elife | 2024 May 15 | https://www.ncbi.nlm.nih.gov/pubmed/38747717 |
| The competitive landscape of the dsRNA world. | Cottrell KA, Andrews RJ, Bass BL | Molecular cell | 38118451 | Mol Cell | 2024 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/38118451 |
| Structural homology screens reveal poxvirus-encoded proteins impacting inflammasome-mediated defenses. | Boys IN, Johnson AG, Quinlan M, Kranzusch PJ, Elde NC | bioRxiv : the preprint server for biology | 36909515 | bioRxiv | 2023 Apr 3 | https://www.ncbi.nlm.nih.gov/pubmed/36909515 |
| Thg1 family 3'-5' RNA polymerases as tools for targeted RNA synthesis. | Jayasinghe MI, Patel KJ, Jackman JE | RNA (New York, N.Y.) | 38997129 | RNA | 2024 Sep 16 | https://www.ncbi.nlm.nih.gov/pubmed/38997129 |
| Ancestral protein reconstruction reveals evolutionary events governing variation in Dicer helicase function. | Aderounmu AM, Aruscavage PJ, Kolaczkowski B, Bass BL | eLife | 37068011 | Elife | 2023 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/37068011 |
| Structural homology screens reveal host-derived poxvirus protein families impacting inflammasome activity. | Boys IN, Johnson AG, Quinlan MR, Kranzusch PJ, Elde NC | Cell reports | 37494187 | Cell Rep | 2023 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/37494187 |
| Ancestral characterization of 1018 cancer cell lines highlights disparities and reveals gene expression and mutational differences. | Kessler MD, Bateman NW, Conrads TP, Maxwell GL, Dunning Hotopp JC, O'Connor TD | Cancer | 30865299 | Cancer | 2019 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/30865299 |
| The Complexities and Nuances of Analyzing the Genome of Drosophila ananassae and Its Wolbachia Endosymbiont. | Dunning Hotopp JC, Klasson L | G3 (Bethesda, Md.) | 29301977 | G3 (Bethesda) | 2018 Jan 4 | https://www.ncbi.nlm.nih.gov/pubmed/29301977 |
| Pim kinase inhibitor co-treatment decreases alternative non-homologous end-joining DNA repair and genomic instability induced by topoisomerase 2 inhibitors in cells with FLT3 internal tandem duplication. | Scarpa M, Kapoor S, Tvedte ES, Doshi KA, Zou YS, Singh P, Lee JK, Chatterjee A, Ali MKM, Bromley RE, Hotopp JCD, Rassool FV, Baer MR | Oncotarget | 34504649 | Oncotarget | 2021 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/34504649 |
| Aligner optimization increases accuracy and decreases compute times in multi-species sequence data. | Robinson KM, Hawkins AS, Santana-Cruz I, Adkins RS, Shetty AC, Nagaraj S, Sadzewicz L, Tallon LJ, Rasko DA, Fraser CM, Mahurkar A, Silva JC, Dunning Hotopp JC | Microbial genomics | 29114401 | Microb Genom | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/29114401 |
| Lateral gene transfer between prokaryotes and eukaryotes. | Sieber KB, Bromley RE, Dunning Hotopp JC | Experimental cell research | 28189637 | Exp Cell Res | 2017 Sep 15 | https://www.ncbi.nlm.nih.gov/pubmed/28189637 |
| Modeling the integration of bacterial rRNA fragments into the human cancer genome. | Sieber KB, Gajer P, Dunning Hotopp JC | BMC bioinformatics | 27001685 | BMC Bioinformatics | 2016 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/27001685 |
| Accumulation of endosymbiont genomes in an insect autosome followed by endosymbiont replacement. | Tvedte ES, Gasser M, Zhao X, Tallon LJ, Sadzewicz L, Bromley RE, Chung M, Mattick J, Sparklin BC, Dunning Hotopp JC | Current biology : CB | 35671755 | Curr Biol | 2022 Jun 20 | https://www.ncbi.nlm.nih.gov/pubmed/35671755 |
| Distinguishing potential bacteria-tumor associations from contamination in a secondary data analysis of public cancer genome sequence data. | Robinson KM, Crabtree J, Mattick JS, Anderson KE, Dunning Hotopp JC | Microbiome | 28118849 | Microbiome | 2017 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/28118849 |
| Cost effective, experimentally robust differential-expression analysis for human/mammalian, pathogen and dual-species transcriptomics. | Shetty AC, Mattick J, Chung M, McCracken C, Mahurkar A, Filler SG, Fraser CM, Rasko DA, Bruno VM, Dunning Hotopp JC | Microbial genomics | 31851607 | Microb Genom | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31851607 |
| Grafting or pruning in the animal tree: lateral gene transfer and gene loss? | Dunning Hotopp JC | BMC genomics | 29914363 | BMC Genomics | 2018 Jun 18 | https://www.ncbi.nlm.nih.gov/pubmed/29914363 |
| Complete Genome Sequence of wAna, the Wolbachia Endosymbiont of Drosophila ananassae. | Gasser MT, Chung M, Bromley RE, Nadendla S, Dunning Hotopp JC | Microbiology resource announcements | 31649084 | Microbiol Resour Announc | 2019 Oct 24 | https://www.ncbi.nlm.nih.gov/pubmed/31649084 |
| Comparison of long-read sequencing technologies in interrogating bacteria and fly genomes. | Tvedte ES, Gasser M, Sparklin BC, Michalski J, Hjelmen CE, Johnston JS, Zhao X, Bromley R, Tallon LJ, Sadzewicz L, Rasko DA, Dunning Hotopp JC | G3 (Bethesda, Md.) | 33768248 | G3 (Bethesda) | 2021 Jun 17 | https://www.ncbi.nlm.nih.gov/pubmed/33768248 |
| TwinBLAST: When Two Is Better than One. | Dunning Hotopp JC, Matsumura J, Bromley RE, Riley DR, Agrawal S, Sparklin B, Mattick J, Crabtree J, Mahurkar A | Microbiology resource announcements | 31467106 | Microbiol Resour Announc | 2019 Aug 29 | https://www.ncbi.nlm.nih.gov/pubmed/31467106 |
| Best Practices for Successfully Writing and Publishing a Genome Announcement in Microbiology Resource Announcements. | Dunning Hotopp JC, Baltrus DA, Bruno VM, Dennehy JJ, Gill SR, Maresca JA, Matthijnssens J, Newton ILG, Putonti C, Rasko DA, Rokas A, Roux S, Stajich JE, Stedman KM, Stewart FJ, Thrash JC | Microbiology resource announcements | 32883786 | Microbiol Resour Announc | 2020 Sep 3 | https://www.ncbi.nlm.nih.gov/pubmed/32883786 |
| Updated annotation and meta-analysis of Brugia malayi transcriptomics data reveals consistent transcriptional profiles across time and space with some study-specific differences in adult female worm transcriptional profiles. | Holt CI, Dunning Hotopp JC | PLoS neglected tropical diseases | 39325836 | PLoS Negl Trop Dis | 2024 Sep | https://www.ncbi.nlm.nih.gov/pubmed/39325836 |
| Lutetium background radiation in total-body PET-A simulation study on opportunities and challenges in PET attenuation correction. | Omidvari N, Cheng L, Leung EK, Abdelhafez YG, Badawi RD, Ma T, Qi J, Cherry SR | Frontiers in nuclear medicine | 36172601 | Front Nucl Med | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36172601 |
| Total-Body (18)F-FDG PET/CT in Autoimmune Inflammatory Arthritis at Ultra-Low Dose: Initial Observations. | Abdelhafez Y, Raychaudhuri SP, Mazza D, Sarkar S, Hunt HL, McBride K, Nguyen M, Caudle DT, Spencer BA, Omidvari N, Bang H, Cherry SR, Nardo L, Badawi RD, Chaudhari AJ | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 35589405 | J Nucl Med | 2022 Oct | https://www.ncbi.nlm.nih.gov/pubmed/35589405 |
| Total-body PET/CT - First Clinical Experiences and Future Perspectives. | Ng QK, Triumbari EKA, Omidvari N, Cherry SR, Badawi RD, Nardo L | Seminars in nuclear medicine | 35272853 | Semin Nucl Med | 2022 May | https://www.ncbi.nlm.nih.gov/pubmed/35272853 |
| First Human Imaging Studies with the EXPLORER Total-Body PET Scanner. | Badawi RD, Shi H, Hu P, Chen S, Xu T, Price PM, Ding Y, Spencer BA, Nardo L, Liu W, Bao J, Jones T, Li H, Cherry SR | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 30733314 | J Nucl Med | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30733314 |
| Mini EXPLORER II: a prototype high-sensitivity PET/CT scanner for companion animal whole body and human brain scanning. | Lv Y, Lv X, Liu W, Judenhofer MS, Zwingenberger A, Wisner E, Berg E, McKenney S, Leung E, Spencer BA, Cherry SR, Badawi RD | Physics in medicine and biology | 30620929 | Phys Med Biol | 2019 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/30620929 |
| Performance assessment of a software-based coincidence processor for the EXPLORER total-body PET scanner. | Leung EK, Judenhofer MS, Cherry SR, Badawi RD | Physics in medicine and biology | 30152793 | Phys Med Biol | 2018 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/30152793 |
| Subsecond total-body imaging using ultrasensitive positron emission tomography. | Zhang X, Cherry SR, Xie Z, Shi H, Badawi RD, Qi J | Proceedings of the National Academy of Sciences of the United States of America | 31964808 | Proc Natl Acad Sci U S A | 2020 Feb 4 | https://www.ncbi.nlm.nih.gov/pubmed/31964808 |
| PennPET Explorer: Human Imaging on a Whole-Body Imager. | Pantel AR, Viswanath V, Daube-Witherspoon ME, Dubroff JG, Muehllehner G, Parma MJ, Pryma DA, Schubert EK, Mankoff DA, Karp JS | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 31562224 | J Nucl Med | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31562224 |
| Development and Evaluation of mini-EXPLORER: A Long Axial Field-of-View PET Scanner for Nonhuman Primate Imaging. | Berg E, Zhang X, Bec J, Judenhofer MS, Patel B, Peng Q, Kapusta M, Schmand M, Casey ME, Tarantal AF, Qi J, Badawi RD, Cherry SR | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 29419483 | J Nucl Med | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29419483 |
| Optimization-derived blood input function using a kernel method and its evaluation with total-body PET for brain parametric imaging. | Zhu Y, Tran Q, Wang Y, Badawi RD, Cherry SR, Qi J, Abbaszadeh S, Wang G | NeuroImage | 38643890 | Neuroimage | 2024 Jun | https://www.ncbi.nlm.nih.gov/pubmed/38643890 |
| Performance Characteristics of Long Axial Field-of-View PET Scanners with Axial Gaps. | Daube-Witherspoon ME, Viswanath V, Werner ME, Karp JS | IEEE transactions on radiation and plasma medical sciences | 34179595 | IEEE Trans Radiat Plasma Med Sci | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/34179595 |
| Clinical Implementation of Total-Body PET/CT at University of California, Davis. | Nardo L, Abdelhafez YG, Spencer BA, Badawi RD | PET clinics | 33218600 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33218600 |
| Scanner Design Considerations for Long Axial Field-of-View PET Systems. | Daube-Witherspoon ME, Cherry SR | PET clinics | 33160929 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33160929 |
| 3D/4D Reconstruction and Quantitative Total Body Imaging. | Qi J, Matej S, Wang G, Zhang X | PET clinics | 33218603 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33218603 |
| Oncologic Applications of Long Axial Field-of-View PET/Computed Tomography. | Nardo L, Pantel AR | PET clinics | 33218605 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33218605 |
| Cloud-based serverless computing enables accelerated monte carlo simulations for nuclear medicine imaging. | Bayerlein R, Swarnakar V, Selfridge A, Spencer BA, Nardo L, Badawi RD | Biomedical physics & engineering express | 38876087 | Biomed Phys Eng Express | 2024 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/38876087 |
| The role of brown adipose tissue in branched-chain amino acid clearance in people. | Abdelhafez YG, Wang G, Li S, Pellegrinelli V, Chaudhari AJ, Ramirez A, Sen F, Vidal-Puig A, Sidossis LS, Klein S, Badawi RD, Chondronikola M | iScience | 39175781 | iScience | 2024 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/39175781 |
| Quantitative PET imaging and modeling of molecular blood-brain barrier permeability. | Chung KJ, Abdelhafez YG, Spencer BA, Jones T, Tran Q, Nardo L, Chen MS Jr, Sarkar S, Medici V, Lyo V, Badawi RD, Cherry SR, Wang G | Nature communications | 40159510 | Nat Commun | 2025 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/40159510 |
| Reaching 200-ps timing resolution in a time-of-flight and depth-of-interaction positron emission tomography detector using phosphor-coated crystals and high-density silicon photomultipliers. | Kwon SI, Ferri A, Gola A, Berg E, Piemonte C, Cherry SR, Roncali E | Journal of medical imaging (Bellingham, Wash.) | 27921069 | J Med Imaging (Bellingham) | 2016 Oct | https://www.ncbi.nlm.nih.gov/pubmed/27921069 |
| Numerical observer study of lesion detectability for a long axial field-of-view whole-body PET imager using the PennPET Explorer. | Viswanath V, Daube Witherspoon ME, Karp JS, Surti S | Physics in medicine and biology | 31816616 | Phys Med Biol | 2020 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/31816616 |
| Practical joint reconstruction of activity and attenuation with autonomous scaling for time-of-flight PET. | Li Y, Matej S, Karp JS | Physics in medicine and biology | 32340014 | Phys Med Biol | 2020 Dec 23 | https://www.ncbi.nlm.nih.gov/pubmed/32340014 |
| PET Parametric Imaging: Past, Present, and Future. | Wang G, Rahmim A, Gunn RN | IEEE transactions on radiation and plasma medical sciences | 33763624 | IEEE Trans Radiat Plasma Med Sci | 2020 Nov | https://www.ncbi.nlm.nih.gov/pubmed/33763624 |
| Analysis of Four-Dimensional Data for Total Body PET Imaging. | Viswanath V, Chitalia R, Pantel AR, Karp JS, Mankoff DA | PET clinics | 33218604 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33218604 |
| Quantitative accuracy in total-body imaging using the uEXPLORER PET/CT scanner. | Leung EK, Berg E, Omidvari N, Spencer BA, Li E, Abdelhafez YG, Schmall JP, Liu W, He L, Tang S, Liu Y, Dong Y, Jones T, Cherry SR, Badawi RD | Physics in medicine and biology | 34544074 | Phys Med Biol | 2021 Oct 11 | https://www.ncbi.nlm.nih.gov/pubmed/34544074 |
| Performance Evaluation of the uEXPLORER Total-Body PET/CT Scanner Based on NEMA NU 2-2018 with Additional Tests to Characterize PET Scanners with a Long Axial Field of View. | Spencer BA, Berg E, Schmall JP, Omidvari N, Leung EK, Abdelhafez YG, Tang S, Deng Z, Dong Y, Lv Y, Bao J, Liu W, Li H, Jones T, Badawi RD, Cherry SR | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 33008932 | J Nucl Med | 2021 Jun 1 | https://www.ncbi.nlm.nih.gov/pubmed/33008932 |
| Total-Body Quantitative Parametric Imaging of Early Kinetics of (18)F-FDG. | Feng T, Zhao Y, Shi H, Li H, Zhang X, Wang G, Price PM, Badawi RD, Cherry SR, Jones T | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 32948679 | J Nucl Med | 2021 May 10 | https://www.ncbi.nlm.nih.gov/pubmed/32948679 |
| Impact of event positioning algorithm on performance of a whole-body PET scanner using one-to-one coupled detectors. | Surti S, Karp JS | Physics in medicine and biology | 29411709 | Phys Med Biol | 2018 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/29411709 |
| Total-Body PET: Maximizing Sensitivity to Create New Opportunities for Clinical Research and Patient Care. | Cherry SR, Jones T, Karp JS, Qi J, Moses WW, Badawi RD | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 28935835 | J Nucl Med | 2018 Jan | https://www.ncbi.nlm.nih.gov/pubmed/28935835 |
| Exploring Vessel Wall Biology In Vivo by Ultrasensitive Total-Body PET. | Derlin T, Spencer BA, Mamach M, Abdelhafez Y, Nardo L, Badawi RD, Cherry SR, Bengel FM | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 36175139 | J Nucl Med | 2023 Mar | https://www.ncbi.nlm.nih.gov/pubmed/36175139 |
| EXPLORing Arthritis with Total-body Positron Emission Tomography. | Chaudhari AJ, Abdelhafez YG, Nardo L, Raychaudhuri SP | Seminars in musculoskeletal radiology | 37935209 | Semin Musculoskelet Radiol | 2023 Dec | https://www.ncbi.nlm.nih.gov/pubmed/37935209 |
| Total-body Dynamic Imaging and Kinetic Modeling of (18)F-AraG in Healthy Individuals and a Non-Small Cell Lung Cancer Patient Undergoing Anti-PD-1 Immunotherapy. | Omidvari N, Levi J, Abdelhafez YG, Wang Y, Nardo L, Daly ME, Wang G, Cherry SR | medRxiv : the preprint server for health sciences | 37790461 | medRxiv | 2023 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/37790461 |
| Numerical investigation reveals challenges in measuring the contrast recovery coefficients in PET. | Bayerlein R, Spencer BA, Abdelhafez YG, Cherry SR, Badawi RD, Omidvari N | Physics in medicine and biology | 37802064 | Phys Med Biol | 2023 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/37802064 |
| First-in-human immunoPET imaging of COVID-19 convalescent patients using dynamic total-body PET and a CD8-targeted minibody. | Omidvari N, Jones T, Price PM, Ferre AL, Lu J, Abdelhafez YG, Sen F, Cohen SH, Schmiedehausen K, Badawi RD, Shacklett BL, Wilson I, Cherry SR | medRxiv : the preprint server for health sciences | 36993568 | medRxiv | 2023 Mar 20 | https://www.ncbi.nlm.nih.gov/pubmed/36993568 |
| Total-Body Multiparametric PET Quantification of (18) F-FDG Delivery and Metabolism in the Study of COVID-19 Recovery. | Wang Y, Nardo L, Spencer BA, Abdelhafez YG, Li EJ, Omidvari N, Chaudhari AJ, Badawi RD, Jones T, Cherry SR, Wang G | medRxiv : the preprint server for health sciences | 37034643 | medRxiv | 2023 Mar 30 | https://www.ncbi.nlm.nih.gov/pubmed/37034643 |
| High-Temporal-Resolution Lung Kinetic Modeling Using Total-Body Dynamic PET with Time-Delay and Dispersion Corrections. | Wang Y, Spencer BA, Schmall J, Li E, Badawi RD, Jones T, Cherry SR, Wang G | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 37116916 | J Nucl Med | 2023 Jul | https://www.ncbi.nlm.nih.gov/pubmed/37116916 |
| Quantitative PET imaging and modeling of molecular blood-brain barrier permeability. | Chung KJ, Abdelhafez YG, Spencer BA, Jones T, Tran Q, Nardo L, Chen MS Jr, Sarkar S, Medici V, Lyo V, Badawi RD, Cherry SR, Wang G | medRxiv : the preprint server for health sciences | 39108503 | medRxiv | 2024 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/39108503 |
| Quantitative Total-Body Imaging of Blood Flow with High Temporal Resolution Early Dynamic (18)F-Fluorodeoxyglucose PET Kinetic Modeling. | Chung KJ, Chaudhari AJ, Nardo L, Jones T, Chen MS Jr, Badawi RD, Cherry SR, Wang G | medRxiv : the preprint server for health sciences | 39252929 | medRxiv | 2024 Aug 31 | https://www.ncbi.nlm.nih.gov/pubmed/39252929 |
| Role of Total Body PET/CT in Inflammatory Disorders. | Zoghi S, Mingels C, Badawi RD, Spencer BA, Yarbrough TL, Nardo L, Chaudhari AJ | Seminars in nuclear medicine | 39578110 | Semin Nucl Med | 2025 Jan | https://www.ncbi.nlm.nih.gov/pubmed/39578110 |
| Total Body PET: Why, How, What for? | Surti S, Pantel AR, Karp JS | IEEE transactions on radiation and plasma medical sciences | 33134653 | IEEE Trans Radiat Plasma Med Sci | 2020 May | https://www.ncbi.nlm.nih.gov/pubmed/33134653 |
| Quantitative image reconstruction for total-body PET imaging using the 2-meter long EXPLORER scanner. | Zhang X, Zhou J, Cherry SR, Badawi RD, Qi J | Physics in medicine and biology | 28240215 | Phys Med Biol | 2017 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/28240215 |
| PennPET Explorer: Design and Preliminary Performance of a Whole-Body Imager. | Karp JS, Viswanath V, Geagan MJ, Muehllehner G, Pantel AR, Parma MJ, Perkins AE, Schmall JP, Werner ME, Daube-Witherspoon ME | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 31227573 | J Nucl Med | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31227573 |
| Total-Body Multiparametric PET Quantification of (18)F-FDG Delivery and Metabolism in the Study of Coronavirus Disease 2019 Recovery. | Wang Y, Nardo L, Spencer BA, Abdelhafez YG, Li EJ, Omidvari N, Chaudhari AJ, Badawi RD, Jones T, Cherry SR, Wang G | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 37591539 | J Nucl Med | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37591539 |
| Facial Anonymization and Privacy Concerns in Total-Body PET/CT. | Selfridge AR, Spencer BA, Abdelhafez YG, Nakagawa K, Tupin JD, Badawi RD | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 37268426 | J Nucl Med | 2023 Aug | https://www.ncbi.nlm.nih.gov/pubmed/37268426 |
| Total-Body PET Kinetic Modeling and Potential Opportunities Using Deep Learning. | Wang Y, Li E, Cherry SR, Wang G | PET clinics | 34353745 | PET Clin | 2021 Oct | https://www.ncbi.nlm.nih.gov/pubmed/34353745 |
| Relating(18)F-FDG image signal-to-noise ratio to time-of-flight noise-equivalent count rate in total-body PET using the uEXPLORER scanner. | Leung EK, Abdelhafez YG, Berg E, Xie Z, Zhang X, Bayerlein R, Spencer B, Li E, Omidvari N, Selfridge A, Cherry SR, Qi J, Badawi RD | Physics in medicine and biology | 35609588 | Phys Med Biol | 2022 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/35609588 |
| Multimodal positron emission tomography (PET) imaging in non-oncologic musculoskeletal radiology. | Kogan F, Yoon D, Teeter MG, Chaudhari AJ, Hales L, Barbieri M, Gold GE, Vainberg Y, Goyal A, Watkins L | Skeletal radiology | 38492029 | Skeletal Radiol | 2024 Sep | https://www.ncbi.nlm.nih.gov/pubmed/38492029 |
| Theoretical study of the benefit of long axial field-of-view PET on region of interest quantification. | Zhang X, Badawi RD, Cherry SR, Qi J | Physics in medicine and biology | 29799814 | Phys Med Biol | 2018 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/29799814 |
| Innovations in Instrumentation for Positron Emission Tomography. | Berg E, Cherry SR | Seminars in nuclear medicine | 29852942 | Semin Nucl Med | 2018 Jul | https://www.ncbi.nlm.nih.gov/pubmed/29852942 |
| Quantitative PET in the 2020s: a roadmap. | Meikle SR, Sossi V, Roncali E, Cherry SR, Banati R, Mankoff D, Jones T, James M, Sutcliffe J, Ouyang J, Petibon Y, Ma C, El Fakhri G, Surti S, Karp JS, Badawi RD, Yamaya T, Akamatsu G, Schramm G, Rezaei A, Nuyts J, Fulton R, Kyme A, Lois C, Sari H, Price J, Boellaard R, Jeraj R, Bailey DL, Eslick E, Willowson KP, Dutta J | Physics in medicine and biology | 33339012 | Phys Med Biol | 2021 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/33339012 |
| Update on the PennPET Explorer: A Whole-body Imager with Scalable Axial Field-of-View. | Pantel AR, Viswanath V, Karp JS | PET clinics | 33218602 | PET Clin | 2021 Jan | https://www.ncbi.nlm.nih.gov/pubmed/33218602 |
| Parallax error in long-axial field-of-view PET scanners-a simulation study. | Schmall JP, Karp JS, Werner M, Surti S | Physics in medicine and biology | 27367971 | Phys Med Biol | 2016 Jul 21 | https://www.ncbi.nlm.nih.gov/pubmed/27367971 |
| Total-body imaging: Transforming the role of positron emission tomography. | Cherry SR, Badawi RD, Karp JS, Moses WW, Price P, Jones T | Science translational medicine | 28298419 | Sci Transl Med | 2017 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/28298419 |
| Total-Body Dynamic Reconstruction and Parametric Imaging on the uEXPLORER. | Zhang X, Xie Z, Berg E, Judenhofer MS, Liu W, Xu T, Ding Y, Lv Y, Dong Y, Deng Z, Tang S, Shi H, Hu P, Chen S, Bao J, Li H, Zhou J, Wang G, Cherry SR, Badawi RD, Qi J | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 31302637 | J Nucl Med | 2020 Feb | https://www.ncbi.nlm.nih.gov/pubmed/31302637 |
| Advances in PET Diagnostics for Guiding Targeted Cancer Therapy and Studying In Vivo Cancer Biology. | Mankoff DA, Pantel AR, Viswanath V, Karp JS | Current pathobiology reports | 37092138 | Curr Pathobiol Rep | 2019 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37092138 |
| First-in-human immunoPET imaging of COVID-19 convalescent patients using dynamic total-body PET and a CD8-targeted minibody. | Omidvari N, Jones T, Price PM, Ferre AL, Lu J, Abdelhafez YG, Sen F, Cohen SH, Schmiedehausen K, Badawi RD, Shacklett BL, Wilson I, Cherry SR | Science advances | 37824612 | Sci Adv | 2023 Oct 13 | https://www.ncbi.nlm.nih.gov/pubmed/37824612 |
| Total-Body Perfusion Imaging with [(11)C]-Butanol. | Li EJ, López JE, Spencer BA, Abdelhafez Y, Badawi RD, Wang G, Cherry SR | Journal of nuclear medicine : official publication, Society of Nuclear Medicine | 37652544 | J Nucl Med | 2023 Nov | https://www.ncbi.nlm.nih.gov/pubmed/37652544 |
| Synthetic biology approaches to engineer T cells. | Wu CY, Rupp LJ, Roybal KT, Lim WA | Current opinion in immunology | 26218616 | Curr Opin Immunol | 2015 Aug | https://www.ncbi.nlm.nih.gov/pubmed/26218616 |
| Engineering T Cells with Customized Therapeutic Response Programs Using Synthetic Notch Receptors. | Roybal KT, Williams JZ, Morsut L, Rupp LJ, Kolinko I, Choe JH, Walker WJ, McNally KA, Lim WA | Cell | 27693353 | Cell | 2016 Oct 6 | https://www.ncbi.nlm.nih.gov/pubmed/27693353 |
| Synthetic Immunology: Hacking Immune Cells to Expand Their Therapeutic Capabilities. | Roybal KT, Lim WA | Annual review of immunology | 28446063 | Annu Rev Immunol | 2017 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/28446063 |
| Engineering Therapeutic T Cells: From Synthetic Biology to Clinical Trials. | Esensten JH, Bluestone JA, Lim WA | Annual review of pathology | 27959633 | Annu Rev Pathol | 2017 Jan 24 | https://www.ncbi.nlm.nih.gov/pubmed/27959633 |
| CRISPR/Cas9-mediated PD-1 disruption enhances anti-tumor efficacy of human chimeric antigen receptor T cells. | Rupp LJ, Schumann K, Roybal KT, Gate RE, Ye CJ, Lim WA, Marson A | Scientific reports | 28389661 | Sci Rep | 2017 Apr 7 | https://www.ncbi.nlm.nih.gov/pubmed/28389661 |
| Synthetic cytokine circuits that drive T cells into immune-excluded tumors. | Allen GM, Frankel NW, Reddy NR, Bhargava HK, Yoshida MA, Stark SR, Purl M, Lee J, Yee JL, Yu W, Li AW, Garcia KC, El-Samad H, Roybal KT, Spitzer MH, Lim WA | Science (New York, N.Y.) | 36520915 | Science | 2022 Dec 16 | https://www.ncbi.nlm.nih.gov/pubmed/36520915 |
| Engineering cytokines and cytokine circuits. | Li AW, Lim WA | Science (New York, N.Y.) | 33243875 | Science | 2020 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/33243875 |
| T cell circuits that sense antigen density with an ultrasensitive threshold. | Hernandez-Lopez RA, Yu W, Cabral KA, Creasey OA, Lopez Pazmino MDP, Tonai Y, De Guzman A, Mäkelä A, Saksela K, Gartner ZJ, Lim WA | Science (New York, N.Y.) | 33632893 | Science | 2021 Mar 12 | https://www.ncbi.nlm.nih.gov/pubmed/33632893 |
| Remote control of therapeutic T cells through a small molecule-gated chimeric receptor. | Wu CY, Roybal KT, Puchner EM, Onuffer J, Lim WA | Science (New York, N.Y.) | 26405231 | Science | 2015 Oct 16 | https://www.ncbi.nlm.nih.gov/pubmed/26405231 |
| Precise T cell recognition programs designed by transcriptionally linking multiple receptors. | Williams JZ, Allen GM, Shah D, Sterin IS, Kim KH, Garcia VP, Shavey GE, Yu W, Puig-Saus C, Tsoi J, Ribas A, Roybal KT, Lim WA | Science (New York, N.Y.) | 33243890 | Science | 2020 Nov 27 | https://www.ncbi.nlm.nih.gov/pubmed/33243890 |
| T cells selectively filter oscillatory signals on the minutes timescale. | O'Donoghue GP, Bugaj LJ, Anderson W, Daniels KG, Rawlings DJ, Lim WA | Proceedings of the National Academy of Sciences of the United States of America | 33627405 | Proc Natl Acad Sci U S A | 2021 Mar 2 | https://www.ncbi.nlm.nih.gov/pubmed/33627405 |
| SynNotch-CAR T cells overcome challenges of specificity, heterogeneity, and persistence in treating glioblastoma. | Choe JH, Watchmaker PB, Simic MS, Gilbert RD, Li AW, Krasnow NA, Downey KM, Yu W, Carrera DA, Celli A, Cho J, Briones JD, Duecker JM, Goretsky YE, Dannenfelser R, Cardarelli L, Troyanskaya O, Sidhu SS, Roybal KT, Okada H, Lim WA | Science translational medicine | 33910979 | Sci Transl Med | 2021 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/33910979 |
| The Principles of Engineering Immune Cells to Treat Cancer. | Lim WA, June CH | Cell | 28187291 | Cell | 2017 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/28187291 |
| Engineering Customized Cell Sensing and Response Behaviors Using Synthetic Notch Receptors. | Morsut L, Roybal KT, Xiong X, Gordley RM, Coyle SM, Thomson M, Lim WA | Cell | 26830878 | Cell | 2016 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/26830878 |
| Precision Tumor Recognition by T Cells With Combinatorial Antigen-Sensing Circuits. | Roybal KT, Rupp LJ, Morsut L, Walker WJ, McNally KA, Park JS, Lim WA | Cell | 26830879 | Cell | 2016 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/26830879 |
| Discriminatory Power of Combinatorial Antigen Recognition in Cancer T Cell Therapies. | Dannenfelser R, Allen GM, VanderSluis B, Koegel AK, Levinson S, Stark SR, Yao V, Tadych A, Troyanskaya OG, Lim WA | Cell systems | 32916097 | Cell Syst | 2020 Sep 23 | https://www.ncbi.nlm.nih.gov/pubmed/32916097 |
| Modular engineering of cellular signaling proteins and networks. | Gordley RM, Bugaj LJ, Lim WA | Current opinion in structural biology | 27423114 | Curr Opin Struct Biol | 2016 Aug | https://www.ncbi.nlm.nih.gov/pubmed/27423114 |
| Choosing the Right Tool for the Job: RNAi, TALEN, or CRISPR. | Boettcher M, McManus MT | Molecular cell | 26000843 | Mol Cell | 2015 May 21 | https://www.ncbi.nlm.nih.gov/pubmed/26000843 |
| A Mechanical Switch Couples T Cell Receptor Triggering to the Cytoplasmic Juxtamembrane Regions of CD3ζζ. | Lee MS, Glassman CR, Deshpande NR, Badgandi HB, Parrish HL, Uttamapinant C, Stawski PS, Ting AY, Kuhns MS | Immunity | 26231119 | Immunity | 2015 Aug 18 | https://www.ncbi.nlm.nih.gov/pubmed/26231119 |
| An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells. | Lobingier BT, Hüttenhain R, Eichel K, Miller KB, Ting AY, von Zastrow M, Krogan NJ | Cell | 28388416 | Cell | 2017 Apr 6 | https://www.ncbi.nlm.nih.gov/pubmed/28388416 |
| Atlas of Subcellular RNA Localization Revealed by APEX-Seq. | Fazal FM, Han S, Parker KR, Kaewsapsak P, Xu J, Boettiger AN, Chang HY, Ting AY | Cell | 31230715 | Cell | 2019 Jul 11 | https://www.ncbi.nlm.nih.gov/pubmed/31230715 |
| Spatially resolved proteomic mapping in living cells with the engineered peroxidase APEX2. | Hung V, Udeshi ND, Lam SS, Loh KH, Cox KJ, Pedram K, Carr SA, Ting AY | Nature protocols | 26866790 | Nat Protoc | 2016 Mar | https://www.ncbi.nlm.nih.gov/pubmed/26866790 |
| Proximity labeling: spatially resolved proteomic mapping for neurobiology. | Han S, Li J, Ting AY | Current opinion in neurobiology | 29125959 | Curr Opin Neurobiol | 2018 Jun | https://www.ncbi.nlm.nih.gov/pubmed/29125959 |
| Proximity labeling of protein complexes and cell-type-specific organellar proteomes in Arabidopsis enabled by TurboID. | Mair A, Xu SL, Branon TC, Ting AY, Bergmann DC | eLife | 31535972 | Elife | 2019 Sep 19 | https://www.ncbi.nlm.nih.gov/pubmed/31535972 |
| Correction to Directed Evolution of Split APEX2 Peroxidase. | Han Y, Branon TC, Martell JD, Boassa D, Shechner D, Ellisman MH, Ting A | ACS chemical biology | 31657543 | ACS Chem Biol | 2019 Dec 20 | https://www.ncbi.nlm.nih.gov/pubmed/31657543 |
| Electron microscopy using the genetically encoded APEX2 tag in cultured mammalian cells. | Martell JD, Deerinck TJ, Lam SS, Ellisman MH, Ting AY | Nature protocols | 28796234 | Nat Protoc | 2017 Sep | https://www.ncbi.nlm.nih.gov/pubmed/28796234 |
| Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells. | Han S, Udeshi ND, Deerinck TJ, Svinkina T, Ellisman MH, Carr SA, Ting AY | Cell chemical biology | 28238724 | Cell Chem Biol | 2017 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/28238724 |
| Directed Evolution of Split APEX2 Peroxidase. | Han Y, Branon TC, Martell JD, Boassa D, Shechner D, Ellisman MH, Ting A | ACS chemical biology | 30848125 | ACS Chem Biol | 2019 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/30848125 |
| Mapping the signaling network of BIN2 kinase using TurboID-mediated biotin labeling and phosphoproteomics. | Kim TW, Park CH, Hsu CC, Kim YW, Ko YW, Zhang Z, Zhu JY, Hsiao YC, Branon T, Kaasik K, Saldivar E, Li K, Pasha A, Provart NJ, Burlingame AL, Xu SL, Ting AY, Wang ZY | The Plant cell | 36660928 | Plant Cell | 2023 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/36660928 |
| Efficient proximity labeling in living cells and organisms with TurboID. | Branon TC, Bosch JA, Sanchez AD, Udeshi ND, Svinkina T, Carr SA, Feldman JL, Perrimon N, Ting AY | Nature biotechnology | 30125270 | Nat Biotechnol | 2018 Oct | https://www.ncbi.nlm.nih.gov/pubmed/30125270 |
| Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking. | Kaewsapsak P, Shechner DM, Mallard W, Rinn JL, Ting AY | eLife | 29239719 | Elife | 2017 Dec 14 | https://www.ncbi.nlm.nih.gov/pubmed/29239719 |
| Author Correction: Efficient proximity labeling in living cells and organisms with TurboID. | Branon TC, Bosch JA, Sanchez AD, Udeshi ND, Svinkina T, Carr SA, Feldman JL, Perrimon N, Ting AY | Nature biotechnology | 31748691 | Nat Biotechnol | 2020 Jan | https://www.ncbi.nlm.nih.gov/pubmed/31748691 |
| A split horseradish peroxidase for the detection of intercellular protein-protein interactions and sensitive visualization of synapses. | Martell JD, Yamagata M, Deerinck TJ, Phan S, Kwa CG, Ellisman MH, Sanes JR, Ting AY | Nature biotechnology | 27240195 | Nat Biotechnol | 2016 Jul | https://www.ncbi.nlm.nih.gov/pubmed/27240195 |
| Proteomic mapping of cytosol-facing outer mitochondrial and ER membranes in living human cells by proximity biotinylation. | Hung V, Lam SS, Udeshi ND, Svinkina T, Guzman G, Mootha VK, Carr SA, Ting AY | eLife | 28441135 | Elife | 2017 Apr 25 | https://www.ncbi.nlm.nih.gov/pubmed/28441135 |
| Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts. | Loh KH, Stawski PS, Draycott AS, Udeshi ND, Lehrman EK, Wilton DK, Svinkina T, Deerinck TJ, Ellisman MH, Stevens B, Carr SA, Ting AY | Cell | 27565350 | Cell | 2016 Aug 25 | https://www.ncbi.nlm.nih.gov/pubmed/27565350 |
| 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 |
| Label-free intraoperative histology of bone tissue via deep-learning-assisted ultraviolet photoacoustic microscopy. | Cao R, Nelson SD, Davis S, Liang Y, Luo Y, Zhang Y, Crawford B, Wang LV | Nature biomedical engineering | 36123403 | Nat Biomed Eng | 2023 Feb | https://www.ncbi.nlm.nih.gov/pubmed/36123403 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| Label-free high-throughput detection and quantification of circulating melanoma tumor cell clusters by linear-array-based photoacoustic tomography. | Hai P, Zhou Y, Zhang R, Ma J, Li Y, Shao JY, Wang LV | Journal of biomedical optics | 27832253 | J Biomed Opt | 2017 Apr 1 | https://www.ncbi.nlm.nih.gov/pubmed/27832253 |
| 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 |
| 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 |
| 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 |
| Direct measurement of hypoxia in a xenograft multiple myeloma model by optical-resolution photoacoustic microscopy. | Imai T, Muz B, Yeh CH, Yao J, Zhang R, Azab AK, Wang L | Cancer biology & therapy | 28045569 | Cancer Biol Ther | 2017 Feb | https://www.ncbi.nlm.nih.gov/pubmed/28045569 |
| Single-shot ultrafast optical imaging. | Liang J, Wang LV | Optica | 30820445 | Optica | 2018 Sep 20 | https://www.ncbi.nlm.nih.gov/pubmed/30820445 |
| High-throughput ultraviolet photoacoustic microscopy with multifocal excitation. | Imai T, Shi J, Wong TTW, Li L, Zhu L, Wang LV | Journal of biomedical optics | 29546734 | J Biomed Opt | 2018 Mar | https://www.ncbi.nlm.nih.gov/pubmed/29546734 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| Single-shot time-reversed optical focusing into and through scattering media. | Cheng Z, Yang J, Wang LV | ACS photonics | 34337103 | ACS Photonics | 2020 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/34337103 |
| Photoacoustic Computed Tomography of Breast Cancer in Response to Neoadjuvant Chemotherapy. | Lin L, Tong X, Hu P, Invernizzi M, Lai L, Wang LV | Advanced science (Weinheim, Baden-Wurttemberg, Germany) | 33854889 | Adv Sci (Weinh) | 2021 Apr | https://www.ncbi.nlm.nih.gov/pubmed/33854889 |
| Intelligently optimized digital optical phase conjugation with particle swarm optimization. | Cheng Z, Yang J, Wang LV | Optics letters | 32747844 | Opt Lett | 2020 Jan 15 | https://www.ncbi.nlm.nih.gov/pubmed/32747844 |
| 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 |
| Spatio-temporal-spectral imaging of non-repeatable dissipative soliton dynamics. | Jing JC, Wei X, Wang LV | Nature communications | 32345966 | Nat Commun | 2020 Apr 28 | https://www.ncbi.nlm.nih.gov/pubmed/32345966 |
| Wave of single-impulse-stimulated fast initial dip in single vessels of mouse brains imaged by high-speed functional photoacoustic microscopy. | He Y, Shi J, Maslov KI, Cao R, Wang LV | Journal of biomedical optics | 32529816 | J Biomed Opt | 2020 Jun | https://www.ncbi.nlm.nih.gov/pubmed/32529816 |
| Label-free imaging of lipid-rich biological tissues by mid-infrared photoacoustic microscopy. | He Y, Shi J, Pleitez MA, Maslov K, Wagenaar DA, Wang LV | Journal of biomedical optics | 33118344 | J Biomed Opt | 2020 Oct | https://www.ncbi.nlm.nih.gov/pubmed/33118344 |
| Transcranial photoacoustic computed tomography based on a layered back-projection method. | Na S, Yuan X, Lin L, Isla J, Garrett D, Wang LV | Photoacoustics | 33134081 | Photoacoustics | 2020 Dec | https://www.ncbi.nlm.nih.gov/pubmed/33134081 |
| 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 |
| 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 |
| Harnessing a multi-dimensional fibre laser using genetic wavefront shaping. | Wei X, Jing JC, Shen Y, Wang LV | Light, science & applications | 32884678 | Light Sci Appl | 2020 | https://www.ncbi.nlm.nih.gov/pubmed/32884678 |
| 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 |
| 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 |
| 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 |
| 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 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| High-speed photoacoustic microscopy of mouse cortical microhemodynamics. | Lin L, Yao J, Zhang R, Chen CC, Huang CH, Li Y, Wang L, Chapman W, Zou J, Wang LV | Journal of biophotonics | 28009098 | J Biophotonics | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28009098 |
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| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| Photoacoustic topography through an ergodic relay for functional imaging and biometric application in vivo. | Li Y, Li L, Zhu L, Shi J, Maslov K, Wang LV | Journal of biomedical optics | 32648387 | J Biomed Opt | 2020 Jul | https://www.ncbi.nlm.nih.gov/pubmed/32648387 |
| 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 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 |
| 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 |
| Multiscale Photoacoustic Tomography of a Genetically Encoded Near-Infrared FRET Biosensor. | Li L, Hsu HC, Verkhusha VV, Wang LV, Shcherbakova DM | Advanced science (Weinheim, Baden-Wurttemberg, Germany) | 34533889 | Adv Sci (Weinh) | 2021 Nov | https://www.ncbi.nlm.nih.gov/pubmed/34533889 |
| 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 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 |
| 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 |
| 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 |
| 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 |
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| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| High-speed three-dimensional photoacoustic computed tomography for preclinical research and clinical translation. | Lin L, Hu P, Tong X, Na S, Cao R, Yuan X, Garrett DC, Shi J, Maslov K, Wang LV | Nature communications | 33563996 | Nat Commun | 2021 Feb 9 | https://www.ncbi.nlm.nih.gov/pubmed/33563996 |
| 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 |
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| 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 |
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| 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 |
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| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
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| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
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| 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 |
| 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 |
| 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 |
| Fighting against fast speckle decorrelation for light focusing inside live tissue by photon frequency shifting. | Yang J, Li L, Li J, Cheng Z, Liu Y, Wang LV | ACS photonics | 34113691 | ACS Photonics | 2020 Mar 18 | https://www.ncbi.nlm.nih.gov/pubmed/34113691 |
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| 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 |
| 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 |
| 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 |
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| 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 |
| 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 |
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| 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 |
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| Tissue damage drives co-localization of NF-κB, Smad3, and Nrf2 to direct Rev-erb sensitive wound repair in mouse macrophages. | Eichenfield DZ, Troutman TD, Link VM, Lam MT, Cho H, Gosselin D, Spann NJ, Lesch HP, Tao J, Muto J, Gallo RL, Evans RM, Glass CK | eLife | 27462873 | Elife | 2016 Jul 27 | https://www.ncbi.nlm.nih.gov/pubmed/27462873 |
| Genetic and genomic approaches to understanding macrophage identity and function. | Glass CK | Arteriosclerosis, thrombosis, and vascular biology | 25745059 | Arterioscler Thromb Vasc Biol | 2015 Apr | https://www.ncbi.nlm.nih.gov/pubmed/25745059 |
| Required enhancer-matrin-3 network interactions for a homeodomain transcription program. | Skowronska-Krawczyk D, Ma Q, Schwartz M, Scully K, Li W, Liu Z, Taylor H, Tollkuhn J, Ohgi KA, Notani D, Kohwi Y, Kohwi-Shigematsu T, Rosenfeld MG | Nature | 25119036 | Nature | 2014 Oct 9 | https://www.ncbi.nlm.nih.gov/pubmed/25119036 |
| Epigenomic control of the innate immune response. | Stender JD, Glass CK | Current opinion in pharmacology | 23816801 | Curr Opin Pharmacol | 2013 Aug | https://www.ncbi.nlm.nih.gov/pubmed/23816801 |
| Histone demethylase LSD1 regulates hematopoietic stem cells homeostasis and protects from death by endotoxic shock. | Wang J, Saijo K, Skola D, Jin C, Ma Q, Merkurjev D, Glass CK, Rosenfeld MG | Proceedings of the National Academy of Sciences of the United States of America | 29263096 | Proc Natl Acad Sci U S A | 2018 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/29263096 |
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| Brd4 and JMJD6-associated anti-pause enhancers in regulation of transcriptional pause release. | Liu W, Ma Q, Wong K, Li W, Ohgi K, Zhang J, Aggarwal A, Rosenfeld MG | Cell | 24360279 | Cell | 2013 Dec 19 | https://www.ncbi.nlm.nih.gov/pubmed/24360279 |
| Mutant Huntingtin promotes autonomous microglia activation via myeloid lineage-determining factors. | Crotti A, Benner C, Kerman BE, Gosselin D, Lagier-Tourenne C, Zuccato C, Cattaneo E, Gage FH, Cleveland DW, Glass CK | Nature neuroscience | 24584051 | Nat Neurosci | 2014 Apr | https://www.ncbi.nlm.nih.gov/pubmed/24584051 |
| Mechanisms Underlying the Selection and Function of Macrophage-Specific Enhancers. | Link VM, Gosselin D, Glass CK | Cold Spring Harbor symposia on quantitative biology | 26582787 | Cold Spring Harb Symp Quant Biol | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26582787 |
| Patient-derived xenograft (PDX) models in basic and translational breast cancer research. | Dobrolecki LE, Airhart SD, Alferez DG, Aparicio S, Behbod F, Bentires-Alj M, Brisken C, Bult CJ, Cai S, Clarke RB, Dowst H, Ellis MJ, Gonzalez-Suarez E, Iggo RD, Kabos P, Li S, Lindeman GJ, Marangoni E, McCoy A, Meric-Bernstam F, Piwnica-Worms H, Poupon MF, Reis-Filho J, Sartorius CA, Scabia V, Sflomos G, Tu Y, Vaillant F, Visvader JE, Welm A, Wicha MS, Lewis MT | Cancer metastasis reviews | 28025748 | Cancer Metastasis Rev | 2016 Dec | https://www.ncbi.nlm.nih.gov/pubmed/28025748 |
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| LRP8-Reelin-Regulated Neuronal Enhancer Signature Underlying Learning and Memory Formation. | Telese F, Ma Q, Perez PM, Notani D, Oh S, Li W, Comoletti D, Ohgi KA, Taylor H, Rosenfeld MG | Neuron | 25892301 | Neuron | 2015 May 6 | https://www.ncbi.nlm.nih.gov/pubmed/25892301 |
| Structural and Molecular Mechanisms of Cytokine-Mediated Endocrine Resistance in Human Breast Cancer Cells. | Stender JD, Nwachukwu JC, Kastrati I, Kim Y, Strid T, Yakir M, Srinivasan S, Nowak J, Izard T, Rangarajan ES, Carlson KE, Katzenellenbogen JA, Yao XQ, Grant BJ, Leong HS, Lin CY, Frasor J, Nettles KW, Glass CK | Molecular cell | 28306507 | Mol Cell | 2017 Mar 16 | https://www.ncbi.nlm.nih.gov/pubmed/28306507 |
| Phase separation of ligand-activated enhancers licenses cooperative chromosomal enhancer assembly. | Nair SJ, Yang L, Meluzzi D, Oh S, Yang F, Friedman MJ, Wang S, Suter T, Alshareedah I, Gamliel A, Ma Q, Zhang J, Hu Y, Tan Y, Ohgi KA, Jayani RS, Banerjee PR, Aggarwal AK, Rosenfeld MG | Nature structural & molecular biology | 30833784 | Nat Struct Mol Biol | 2019 Mar | https://www.ncbi.nlm.nih.gov/pubmed/30833784 |
| SREBP1 Contributes to Resolution of Pro-inflammatory TLR4 Signaling by Reprogramming Fatty Acid Metabolism. | Oishi Y, Spann NJ, Link VM, Muse ED, Strid T, Edillor C, Kolar MJ, Matsuzaka T, Hayakawa S, Tao J, Kaikkonen MU, Carlin AF, Lam MT, Manabe I, Shimano H, Saghatelian A, Glass CK | Cell metabolism | 28041958 | Cell Metab | 2017 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/28041958 |
| Towards an understanding of cell-specific functions of signal-dependent transcription factors. | Zhang DX, Glass CK | Journal of molecular endocrinology | 24130129 | J Mol Endocrinol | 2013 Dec | https://www.ncbi.nlm.nih.gov/pubmed/24130129 |
| Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation. | Li W, Notani D, Ma Q, Tanasa B, Nunez E, Chen AY, Merkurjev D, Zhang J, Ohgi K, Song X, Oh S, Kim HS, Glass CK, Rosenfeld MG | Nature | 23728302 | Nature | 2013 Jun 27 | https://www.ncbi.nlm.nih.gov/pubmed/23728302 |
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| Affinity and dose of TCR engagement yield proportional enhancer and gene activity in CD4+ T cells. | Allison KA, Sajti E, Collier JG, Gosselin D, Troutman TD, Stone EL, Hedrick SM, Glass CK | eLife | 27376549 | Elife | 2016 Jul 4 | https://www.ncbi.nlm.nih.gov/pubmed/27376549 |
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| Analysis of Genetically Diverse Macrophages Reveals Local and Domain-wide Mechanisms that Control Transcription Factor Binding and Function. | Link VM, Duttke SH, Chun HB, Holtman IR, Westin E, Hoeksema MA, Abe Y, Skola D, Romanoski CE, Tao J, Fonseca GJ, Troutman TD, Spann NJ, Strid T, Sakai M, Yu M, Hu R, Fang R, Metzler D, Ren B, Glass CK | Cell | 29779944 | Cell | 2018 Jun 14 | https://www.ncbi.nlm.nih.gov/pubmed/29779944 |
| Dismissal of RNA Polymerase II Underlies a Large Ligand-Induced Enhancer Decommissioning Program. | Tan Y, Jin C, Ma W, Hu Y, Tanasa B, Oh S, Gamliel A, Ma Q, Yao L, Zhang J, Ohgi K, Liu W, Aggarwal AK, Rosenfeld MG | Molecular cell | 30118678 | Mol Cell | 2018 Aug 16 | https://www.ncbi.nlm.nih.gov/pubmed/30118678 |
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| Chem-seq permits identification of genomic targets of drugs against androgen receptor regulation selected by functional phenotypic screens. | Jin C, Yang L, Xie M, Lin C, Merkurjev D, Yang JC, Tanasa B, Oh S, Zhang J, Ohgi KA, Zhou H, Li W, Evans CP, Ding S, Rosenfeld MG | Proceedings of the National Academy of Sciences of the United States of America | 24928520 | Proc Natl Acad Sci U S A | 2014 Jun 24 | https://www.ncbi.nlm.nih.gov/pubmed/24928520 |
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| Control of VEGF-A transcriptional programs by pausing and genomic compartmentalization. | Kaikkonen MU, Niskanen H, Romanoski CE, Kansanen E, Kivelä AM, Laitalainen J, Heinz S, Benner C, Glass CK, Ylä-Herttuala S | Nucleic acids research | 25352550 | Nucleic Acids Res | 2014 Nov 10 | https://www.ncbi.nlm.nih.gov/pubmed/25352550 |
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| Characterization and Functional Analysis of scFv-based Chimeric Antigen Receptors to Redirect T Cells to IL13Rα2-positive Glioma. | Krenciute G, Krebs S, Torres D, Wu MF, Liu H, Dotti G, Li XN, Lesniak MS, Balyasnikova IV, Gottschalk S | Molecular therapy : the journal of the American Society of Gene Therapy | 26514825 | Mol Ther | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26514825 |
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| Variance Regularized Counterfactual Risk Minimizationvia Variational Divergence Minimization. | Wu H, Wang MD | Proceedings of machine learning research | 32789292 | Proc Mach Learn Res | 2018 | https://www.ncbi.nlm.nih.gov/pubmed/32789292 |
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| Targeted delivery of siRNA-generating DNA nanocassettes using multifunctional nanoparticles. | Cho YS, Lee GY, Sajja HK, Qian W, Cao Z, He W, Karna P, Chen X, Mao H, Wang YA, Yang L | Small (Weinheim an der Bergstrasse, Germany) | 23292656 | Small | 2013 Jun 10 | https://www.ncbi.nlm.nih.gov/pubmed/23292656 |
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| Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction. | Tong L, Wu PY, Phan JH, Hassazadeh HR, SEQC Consortium, Tong W, Wang MD | Scientific reports | 33087762 | Sci Rep | 2020 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/33087762 |
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| icuARM-II: improving the reliability of personalized risk prediction in pediatric intensive care units. | Cheng CW, Chanani N, Maher K, Wang | ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine | 27532061 | ACM BCB | 2014 Sep | https://www.ncbi.nlm.nih.gov/pubmed/27532061 |
| A High-Resolution Tile-Based Approach for Classifying Biological Regions in Whole-Slide Histopathological Images. | Hoffman RA, Kothari S, Phan JH, Wang MD | IFMBE proceedings | 27532012 | IFMBE Proc | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/27532012 |
| Intraoperative Near-infrared Imaging Can Identify Neoplasms and Aid in Real-time Margin Assessment During Pancreatic Resection. | Newton AD, Predina JD, Shin MH, Frenzel-Sulyok LG, Vollmer CM, Drebin JA, Singhal S, Lee MK 4th | Annals of surgery | 31188797 | Ann Surg | 2019 Jul | https://www.ncbi.nlm.nih.gov/pubmed/31188797 |
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| An integrated widefield imaging and spectroscopy system for contrast-enhanced, image-guided resection of tumors. | Mohs AM, Mancini MC, Provenzale JM, Saba CF, Cornell KK, Howerth EW, Nie S | IEEE transactions on bio-medical engineering | 25585410 | IEEE Trans Biomed Eng | 2015 May | https://www.ncbi.nlm.nih.gov/pubmed/25585410 |
| Intraoperative near-infrared fluorescence imaging and spectroscopy identifies residual tumor cells in wounds. | Holt D, Parthasarathy AB, Okusanya O, Keating J, Venegas O, Deshpande C, Karakousis G, Madajewski B, Durham A, Nie S, Yodh AG, Singhal S | Journal of biomedical optics | 26160347 | J Biomed Opt | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/26160347 |
| Integrating multi-omics data by learning modality invariant representations for improved prediction of overall survival of cancer. | Tong L, Wu H, Wang MD | Methods (San Diego, Calif.) | 32763377 | Methods | 2021 May | https://www.ncbi.nlm.nih.gov/pubmed/32763377 |
| Emergence of two near-infrared windows for in vivo and intraoperative SERS. | Lane LA, Xue R, Nie S | Current opinion in chemical biology | 29631122 | Curr Opin Chem Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29631122 |
| Exploration of Genomic, Proteomic, and Histopathological Image Data Integration Methods for Clinical Prediction. | Poruthoor A, Phan JH, Kothari S, Wang MD | IEEE China Summit & International Conference on Signal and Information Processing. IEEE China Summit & International Conference on Signal and Information Processing | 28393144 | IEEE China Summit Int Conf Signal Inf Process | 2013 Jul | https://www.ncbi.nlm.nih.gov/pubmed/28393144 |
| Comparison of Folate Receptor Targeted Optical Contrast Agents for Intraoperative Molecular Imaging. | De Jesus E, Keating JJ, Kularatne SA, Jiang J, Judy R, Predina J, Nie S, Low P, Singhal S | International journal of molecular imaging | 26491562 | Int J Mol Imaging | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26491562 |
| CAESNet: Convolutional AutoEncoder based Semi-supervised Network for improving multiclass classification of endomicroscopic images. | Tong L, Wu H, Wang MD | Journal of the American Medical Informatics Association : JAMIA | 31260038 | J Am Med Inform Assoc | 2019 Nov 1 | https://www.ncbi.nlm.nih.gov/pubmed/31260038 |
| A fast least-squares algorithm for population inference. | Parry RM, Wang MD | BMC bioinformatics | 23343408 | BMC Bioinformatics | 2013 Jan 23 | https://www.ncbi.nlm.nih.gov/pubmed/23343408 |
| Mapping the spatial distribution of charge carriers in quantum-confined heterostructures. | Smith AM, Lane LA, Nie S | Nature communications | 25080298 | Nat Commun | 2014 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/25080298 |
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| Public Diplomacy in Prime Time: Exploring the Potential of Entertainment Education in International Public Diplomacy. | Murphy ST, Hether HJ, Felt LJ, de Castro Buffington S | American journal of media psychology | 24489980 | Am J Media Psychol | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/24489980 |
| Implementation of HPV vaccination guidelines in a diverse population in Los Angeles: Results from an environmental scan of local HPV resources and needs. | Baezconde-Garbanati L, Lienemann BA, Robles M, Johnson E, Sanchez K, Singhal R, Steinberg J, Jaque JM, Pentz MA, Gruber S | Vaccine | 28774559 | Vaccine | 2017 Sep 5 | https://www.ncbi.nlm.nih.gov/pubmed/28774559 |
| Using a Culturally Tailored Narrative to Increase Cervical Cancer Detection Among Spanish-Speaking Mexican-American Women. | Ochoa CY, Murphy ST, Frank LB, Baezconde-Garbanati LA | Journal of cancer education : the official journal of the American Association for Cancer Education | 31020621 | J Cancer Educ | 2020 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31020621 |
| Self-Construal as a Predictor of Korean American Women's Intention to Vaccinate Daughters against Human Papillomavirus. | Zhao N, Huh J, Murphy ST, Chatterjee JS, Baezconde-Garbanati L | Asian American journal of psychology | 25558309 | Asian Am J Psychol | 2014 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25558309 |
| Telling stories, saving lives: creating narrative health messages. | Frank LB, Murphy ST, Chatterjee JS, Moran MB, Baezconde-Garbanati L | Health communication | 25470440 | Health Commun | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25470440 |
| Barriers and innovative interventions for early detection of cervical cancer. | Baezconde-Garbanati L, Agurto I, Gravitt PE, Luciani S, Murphy S, Ochoa C, Gallegos K, Barahona R, Rodríguez Y | Salud publica de Mexico | 31430087 | Salud Publica Mex | 2019 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/31430087 |
| Information scanning and vaccine safety concerns among African American, Mexican American, and non-Hispanic White women. | Moran MB, Frank LB, Chatterjee JS, Murphy ST, Baezconde-Garbanati L | Patient education and counseling | 26321294 | Patient Educ Couns | 2016 Jan | https://www.ncbi.nlm.nih.gov/pubmed/26321294 |
| Assessing impact of a community-based screening campaign to address social determinants of cervical cancer. | Po J, Bookstein A, Lee W, Barahona R, Baezconde-Garbanati L | JNCI cancer spectrum | 39888858 | JNCI Cancer Spectr | 2025 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/39888858 |
| Comparing the Relative Efficacy of Narrative vs Nonnarrative Health Messages in Reducing Health Disparities Using a Randomized Trial. | Murphy ST, Frank LB, Chatterjee JS, Moran MB, Zhao N, Amezola de Herrera P, Baezconde-Garbanati LA | American journal of public health | 25905845 | Am J Public Health | 2015 Oct | https://www.ncbi.nlm.nih.gov/pubmed/25905845 |
| Each Medium Tells a Different Story: The Effect of Message Channel on Narrative Persuasion. | Walter N, Murphy ST, Frank LB, Baezconde-Garbanati L | Communication research reports : CRR | 30739986 | Commun Res Rep | 2017 | https://www.ncbi.nlm.nih.gov/pubmed/30739986 |
| Susceptibility of Human Endogenous Retrovirus Type K to Reverse Transcriptase Inhibitors. | Contreras-Galindo R, Dube D, Fujinaga K, Kaplan MH, Markovitz DM | Journal of virology | 28931682 | J Virol | 2017 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/28931682 |
| Distinct splice variants and pathway enrichment in the cell-line models of aggressive human breast cancer subtypes. | Menon R, Im H, Zhang EY, Wu SL, Chen R, Snyder M, Hancock WS, Omenn GS | Journal of proteome research | 24111759 | J Proteome Res | 2014 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/24111759 |
| The strategy, organization, and progress of the HUPO Human Proteome Project. | Omenn GS | Journal of proteomics | 24145142 | J Proteomics | 2014 Apr 4 | https://www.ncbi.nlm.nih.gov/pubmed/24145142 |
| Rapid molecular assays to study human centromere genomics. | Contreras-Galindo R, Fischer S, Saha AK, Lundy JD, Cervantes PW, Mourad M, Wang C, Qian B, Dai M, Meng F, Chinnaiyan A, Omenn GS, Kaplan MH, Markovitz DM | Genome research | 29141960 | Genome Res | 2017 Dec | https://www.ncbi.nlm.nih.gov/pubmed/29141960 |
| Genomic flexibility of human endogenous retrovirus type K. | Dube D, Contreras-Galindo R, He S, King SR, Gonzalez-Hernandez MJ, Gitlin SD, Kaplan MH, Markovitz DM | Journal of virology | 24920813 | J Virol | 2014 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/24920813 |
| "Reverse genomics" and human endogenous retroviruses. | Markovitz DM | Transactions of the American Clinical and Climatological Association | 25125718 | Trans Am Clin Climatol Assoc | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/25125718 |
| Expression of human endogenous retrovirus type K (HML-2) is activated by the Tat protein of HIV-1. | Gonzalez-Hernandez MJ, Swanson MD, Contreras-Galindo R, Cookinham S, King SR, Noel RJ Jr, Kaplan MH, Markovitz DM | Journal of virology | 22593154 | J Virol | 2012 Aug | https://www.ncbi.nlm.nih.gov/pubmed/22593154 |
| Discovery of selective bioactive small molecules by targeting an RNA dynamic ensemble. | Stelzer AC, Frank AT, Kratz JD, Swanson MD, Gonzalez-Hernandez MJ, Lee J, Andricioaei I, Markovitz DM, Al-Hashimi HM | Nature chemical biology | 21706033 | Nat Chem Biol | 2011 Jun 26 | https://www.ncbi.nlm.nih.gov/pubmed/21706033 |
| Engineering a therapeutic lectin by uncoupling mitogenicity from antiviral activity. | Swanson MD, Boudreaux DM, Salmon L, Chugh J, Winter HC, Meagher JL, André S, Murphy PV, Oscarson S, Roy R, King S, Kaplan MH, Goldstein IJ, Tarbet EB, Hurst BL, Smee DF, de la Fuente C, Hoffmann HH, Xue Y, Rice CM, Schols D, Garcia JV, Stuckey JA, Gabius HJ, Al-Hashimi HM, Markovitz DM | Cell | 26496612 | Cell | 2015 Oct 22 | https://www.ncbi.nlm.nih.gov/pubmed/26496612 |
| Expansion of a novel endogenous retrovirus throughout the pericentromeres of modern humans. | Zahn J, Kaplan MH, Fischer S, Dai M, Meng F, Saha AK, Cervantes P, Chan SM, Dube D, Omenn GS, Markovitz DM, Contreras-Galindo R | Genome biology | 25886262 | Genome Biol | 2015 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/25886262 |
| Human Endogenous Retrovirus Type K (HERV-K) Particles Package and Transmit HERV-K-Related Sequences. | Contreras-Galindo R, Kaplan MH, Dube D, Gonzalez-Hernandez MJ, Chan S, Meng F, Dai M, Omenn GS, Gitlin SD, Markovitz DM | Journal of virology | 25926654 | J Virol | 2015 Jul | https://www.ncbi.nlm.nih.gov/pubmed/25926654 |
| Regulation of the human endogenous retrovirus K (HML-2) transcriptome by the HIV-1 Tat protein. | Gonzalez-Hernandez MJ, Cavalcoli JD, Sartor MA, Contreras-Galindo R, Meng F, Dai M, Dube D, Saha AK, Gitlin SD, Omenn GS, Kaplan MH, Markovitz DM | Journal of virology | 24872592 | J Virol | 2014 Aug | https://www.ncbi.nlm.nih.gov/pubmed/24872592 |
| The Genomic Landscape of Centromeres in Cancers. | Saha AK, Mourad M, Kaplan MH, Chefetz I, Malek SN, Buckanovich R, Markovitz DM, Contreras-Galindo R | Scientific reports | 31375789 | Sci Rep | 2019 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/31375789 |
| HIV infection reveals widespread expansion of novel centromeric human endogenous retroviruses. | Contreras-Galindo R, Kaplan MH, He S, Contreras-Galindo AC, Gonzalez-Hernandez MJ, Kappes F, Dube D, Chan SM, Robinson D, Meng F, Dai M, Gitlin SD, Chinnaiyan AM, Omenn GS, Markovitz DM | Genome research | 23657884 | Genome Res | 2013 Sep | https://www.ncbi.nlm.nih.gov/pubmed/23657884 |
| Human endogenous retrovirus K Gag coassembles with HIV-1 Gag and reduces the release efficiency and infectivity of HIV-1. | Monde K, Contreras-Galindo R, Kaplan MH, Markovitz DM, Ono A | Journal of virology | 22855497 | J Virol | 2012 Oct | https://www.ncbi.nlm.nih.gov/pubmed/22855497 |
| Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins. | Lane L, Bairoch A, Beavis RC, Deutsch EW, Gaudet P, Lundberg E, Omenn GS | Journal of proteome research | 24364385 | J Proteome Res | 2014 Jan 3 | https://www.ncbi.nlm.nih.gov/pubmed/24364385 |
| Strategies for Genomic and Proteomic Profiling of Cancers. | Omenn GS | Statistics in biosciences | 27594925 | Stat Biosci | 2016 Jun | https://www.ncbi.nlm.nih.gov/pubmed/27594925 |
| Characterization of human endogenous retroviral elements in the blood of HIV-1-infected individuals. | Contreras-Galindo R, Kaplan MH, Contreras-Galindo AC, Gonzalez-Hernandez MJ, Ferlenghi I, Giusti F, Lorenzo E, Gitlin SD, Dosik MH, Yamamura Y, Markovitz DM | Journal of virology | 22031938 | J Virol | 2012 Jan | https://www.ncbi.nlm.nih.gov/pubmed/22031938 |
| A new class of protein cancer biomarker candidates: differentially expressed splice variants of ERBB2 (HER2/neu) and ERBB1 (EGFR) in breast cancer cell lines. | Omenn GS, Guan Y, Menon R | Journal of proteomics | 24802673 | J Proteomics | 2014 Jul 31 | https://www.ncbi.nlm.nih.gov/pubmed/24802673 |
| Innovations in proteomic profiling of cancers: alternative splice variants as a new class of cancer biomarker candidates and bridging of proteomics with structural biology. | Omenn GS, Menon R, Zhang Y | Journal of proteomics | 23603631 | J Proteomics | 2013 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/23603631 |
| NGSQC: cross-platform quality analysis pipeline for deep sequencing data. | Dai M, Thompson RC, Maher C, Contreras-Galindo R, Kaplan MH, Markovitz DM, Omenn G, Meng F | BMC genomics | 21143816 | BMC Genomics | 2010 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/21143816 |
| Genetic Variants in Epigenetic Pathways and Risks of Multiple Cancers in the GAME-ON Consortium. | Toth R, Scherer D, Kelemen LE, Risch A, Hazra A, Balavarca Y, Issa JJ, Moreno V, Eeles RA, Ogino S, Wu X, Ye Y, Hung RJ, Goode EL, Ulrich CM, OCAC, CORECT, TRICL, ELLIPSE, DRIVE, and GAME-ON consortia | Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology | 28115406 | Cancer Epidemiol Biomarkers Prev | 2017 Jun | https://www.ncbi.nlm.nih.gov/pubmed/28115406 |
| Identifying Novel Susceptibility Genes for Colorectal Cancer Risk From a Transcriptome-Wide Association Study of 125,478 Subjects. | Guo X, Lin W, Wen W, Huyghe J, Bien S, Cai Q, Harrison T, Chen Z, Qu C, Bao J, Long J, Yuan Y, Wang F, Bai M, Abecasis GR, Albanes D, Berndt SI, Bézieau S, Bishop DT, Brenner H, Buch S, Burnett-Hartman A, Campbell PT, Castellví-Bel S, Chan AT, Chang-Claude J, Chanock SJ, Cho SH, Conti DV, Chapelle A, Feskens EJM, Gallinger SJ, Giles GG, Goodman PJ, Gsur A, Guinter M, Gunter MJ, Hampe J, Hampel H, Hayes RB, Hoffmeister M, Kampman E, Kang HM, Keku TO, Kim HR, Le Marchand L, Lee SC, Li CI, Li L, Lindblom A, Lindor N, Milne RL, Moreno V, Murphy N, Newcomb PA, Nickerson DA, Offit K, Pearlman R, Pharoah PDP, Platz EA, Potter JD, Rennert G, Sakoda LC, Schafmayer C, Schmit SL, Schoen RE, Schumacher FR, Slattery ML, Su YR, Tangen CM, Ulrich CM, van Duijnhoven FJB, Van Guelpen B, Visvanathan K, Vodicka P, Vodickova L, Vymetalkova V, Wang X, White E, Wolk A, Woods MO, Casey G, Hsu L, Jenkins MA, Gruber SB, Peters U, Zheng W | Gastroenterology | 33058866 | Gastroenterology | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33058866 |
| Nonadditive Effects of Common Genetic Variants Have a Negligent Contribution to Cancer Heritability. | Hammermeister Suger A, Harrison TA, Henning B, Turman C, Kraft P, Lindström S | Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology | 39018351 | Cancer Epidemiol Biomarkers Prev | 2024 Oct 2 | https://www.ncbi.nlm.nih.gov/pubmed/39018351 |
| A Germline Variant on Chromosome 4q31.1 Associates with Susceptibility to Developing Colon Cancer Metastasis. | Markowitz SD, Nock NL, Schmit SL, Stadler ZK, Joseph V, Zhang L, Willis JE, Scacheri P, Veigl M, Adams MD, Raskin L, Sullivan JF, Stratton K, Shia J, Ellis N, Rennert HS, Manschreck C, Li L, Offit K, Elston RC, Rennert G, Gruber SB | PloS one | 26751797 | PLoS One | 2016 | https://www.ncbi.nlm.nih.gov/pubmed/26751797 |
| Novel Common Genetic Susceptibility Loci for Colorectal Cancer. | Schmit SL, Edlund CK, Schumacher FR, Gong J, Harrison TA, Huyghe JR, Qu C, Melas M, Van Den Berg DJ, Wang H, Tring S, Plummer SJ, Albanes D, Alonso MH, Amos CI, Anton K, Aragaki AK, Arndt V, Barry EL, Berndt SI, Bezieau S, Bien S, Bloomer A, Boehm J, Boutron-Ruault MC, Brenner H, Brezina S, Buchanan DD, Butterbach K, Caan BJ, Campbell PT, Carlson CS, Castelao JE, Chan AT, Chang-Claude J, Chanock SJ, Cheng I, Cheng YW, Chin LS, Church JM, Church T, Coetzee GA, Cotterchio M, Cruz Correa M, Curtis KR, Duggan D, Easton DF, English D, Feskens EJM, Fischer R, FitzGerald LM, Fortini BK, Fritsche LG, Fuchs CS, Gago-Dominguez M, Gala M, Gallinger SJ, Gauderman WJ, Giles GG, Giovannucci EL, Gogarten SM, Gonzalez-Villalpando C, Gonzalez-Villalpando EM, Grady WM, Greenson JK, Gsur A, Gunter M, Haiman CA, Hampe J, Harlid S, Harju JF, Hayes RB, Hofer P, Hoffmeister M, Hopper JL, Huang SC, Huerta JM, Hudson TJ, Hunter DJ, Idos GE, Iwasaki M, Jackson RD, Jacobs EJ, Jee SH, Jenkins MA, Jia WH, Jiao S, Joshi AD, Kolonel LN, Kono S, Kooperberg C, Krogh V, Kuehn T, Küry S, LaCroix A, Laurie CA, Lejbkowicz F, Lemire M, Lenz HJ, Levine D, Li CI, Li L, Lieb W, Lin Y, Lindor NM, Liu YR, Loupakis F, Lu Y, Luh F, Ma J, Mancao C, Manion FJ, Markowitz SD, Martin V, Matsuda K, Matsuo K, McDonnell KJ, McNeil CE, Milne R, Molina AJ, Mukherjee B, Murphy N, Newcomb PA, Offit K, Omichessan H, Palli D, Cotoré JPP, Pérez-Mayoral J, Pharoah PD, Potter JD, Qu C, Raskin L, Rennert G, Rennert HS, Riggs BM, Schafmayer C, Schoen RE, Sellers TA, Seminara D, Severi G, Shi W, Shibata D, Shu XO, Siegel EM, Slattery ML, Southey M, Stadler ZK, Stern MC, Stintzing S, Taverna D, Thibodeau SN, Thomas DC, Trichopoulou A, Tsugane S, Ulrich CM, van Duijnhoven FJB, van Guelpan B, Vijai J, Virtamo J, Weinstein SJ, White E, Win AK, Wolk A, Woods M, Wu AH, Wu K, Xiang YB, Yen Y, Zanke BW, Zeng YX, Zhang B, Zubair N, Kweon SS, Figueiredo JC, Zheng W, Marchand LL, Lindblom A, Moreno V, Peters U, Casey G, Hsu L, Conti DV, Gruber SB | Journal of the National Cancer Institute | 29917119 | J Natl Cancer Inst | 2019 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/29917119 |
| Shared heritability and functional enrichment across six solid cancers. | Jiang X, Finucane HK, Schumacher FR, Schmit SL, Tyrer JP, Han Y, Michailidou K, Lesseur C, Kuchenbaecker KB, Dennis J, Conti DV, Casey G, Gaudet MM, Huyghe JR, Albanes D, Aldrich MC, Andrew AS, Andrulis IL, Anton-Culver H, Antoniou AC, Antonenkova NN, Arnold SM, Aronson KJ, Arun BK, Bandera EV, Barkardottir RB, Barnes DR, Batra J, Beckmann MW, Benitez J, Benlloch S, Berchuck A, Berndt SI, Bickeböller H, Bien SA, Blomqvist C, Boccia S, Bogdanova NV, Bojesen SE, Bolla MK, Brauch H, Brenner H, Brenton JD, Brook MN, Brunet J, Brunnström H, Buchanan DD, Burwinkel B, Butzow R, Cadoni G, Caldés T, Caligo MA, Campbell I, Campbell PT, Cancel-Tassin G, Cannon-Albright L, Campa D, Caporaso N, Carvalho AL, Chan AT, Chang-Claude J, Chanock SJ, Chen C, Christiani DC, Claes KBM, Claessens F, Clements J, Collée JM, Correa MC, Couch FJ, Cox A, Cunningham JM, Cybulski C, Czene K, Daly MB, deFazio A, Devilee P, Diez O, Gago-Dominguez M, Donovan JL, Dörk T, Duell EJ, Dunning AM, Dwek M, Eccles DM, Edlund CK, Edwards DRV, Ellberg C, Evans DG, Fasching PA, Ferris RL, Liloglou T, Figueiredo JC, Fletcher O, Fortner RT, Fostira F, Franceschi S, Friedman E, Gallinger SJ, Ganz PA, Garber J, García-Sáenz JA, Gayther SA, Giles GG, Godwin AK, Goldberg MS, Goldgar DE, Goode EL, Goodman MT, Goodman G, Grankvist K, Greene MH, Gronberg H, Gronwald J, Guénel P, Håkansson N, Hall P, Hamann U, Hamdy FC, Hamilton RJ, Hampe J, Haugen A, Heitz F, Herrero R, Hillemanns P, Hoffmeister M, Høgdall E, Hong YC, Hopper JL, Houlston R, Hulick PJ, Hunter DJ, Huntsman DG, Idos G, Imyanitov EN, Ingles SA, Isaacs C, Jakubowska A, James P, Jenkins MA, Johansson M, Johansson M, John EM, Joshi AD, Kaneva R, Karlan BY, Kelemen LE, Kühl T, Khaw KT, Khusnutdinova E, Kibel AS, Kiemeney LA, Kim J, Kjaer SK, Knight JA, Kogevinas M, Kote-Jarai Z, Koutros S, Kristensen VN, Kupryjanczyk J, Lacko M, Lam S, Lambrechts D, Landi MT, Lazarus P, Le ND, Lee E, Lejbkowicz F, Lenz HJ, Leslie G, Lessel D, Lester J, Levine DA, Li L, Li CI, Lindblom A, Lindor NM, Liu G, Loupakis F, Lubiński J, Maehle L, Maier C, Mannermaa A, Marchand LL, Margolin S, May T, McGuffog L, Meindl A, Middha P, Miller A, Milne RL, MacInnis RJ, Modugno F, Montagna M, Moreno V, Moysich KB, Mucci L, Muir K, Mulligan AM, Nathanson KL, Neal DE, Ness AR, Neuhausen SL, Nevanlinna H, Newcomb PA, Newcomb LF, Nielsen FC, Nikitina-Zake L, Nordestgaard BG, Nussbaum RL, Offit K, Olah E, Olama AAA, Olopade OI, Olshan AF, Olsson H, Osorio A, Pandha H, Park JY, Pashayan N, Parsons MT, Pejovic T, Penney KL, Peters WHM, Phelan CM, Phipps AI, Plaseska-Karanfilska D, Pring M, Prokofyeva D, Radice P, Stefansson K, Ramus SJ, Raskin L, Rennert G, Rennert HS, van Rensburg EJ, Riggan MJ, Risch HA, Risch A, Roobol MJ, Rosenstein BS, Rossing MA, De Ruyck K, Saloustros E, Sandler DP, Sawyer EJ, Schabath MB, Schleutker J, Schmidt MK, Setiawan VW, Shen H, Siegel EM, Sieh W, Singer CF, Slattery ML, Sorensen KD, Southey MC, Spurdle AB, Stanford JL, Stevens VL, Stintzing S, Stone J, Sundfeldt K, Sutphen R, Swerdlow AJ, Tajara EH, Tangen CM, Tardon A, Taylor JA, Teare MD, Teixeira MR, Terry MB, Terry KL, Thibodeau SN, Thomassen M, Bjørge L, Tischkowitz M, Toland AE, Torres D, Townsend PA, Travis RC, Tung N, Tworoger SS, Ulrich CM, Usmani N, Vachon CM, Van Nieuwenhuysen E, Vega A, Aguado-Barrera ME, Wang Q, Webb PM, Weinberg CR, Weinstein S, Weissler MC, Weitzel JN, West CML, White E, Whittemore AS, Wichmann HE, Wiklund F, Winqvist R, Wolk A, Woll P, Woods M, Wu AH, Wu X, Yannoukakos D, Zheng W, Zienolddiny S, Ziogas A, Zorn KK, Lane JM, Saxena R, Thomas D, Hung RJ, Diergaarde B, McKay J, Peters U, Hsu L, García-Closas M, Eeles RA, Chenevix-Trench G, Brennan PJ, Haiman CA, Simard J, Easton DF, Gruber SB, Pharoah PDP, Price AL, Pasaniuc B, Amos CI, Kraft P, Lindström S | Nature communications | 30683880 | Nat Commun | 2019 Jan 25 | https://www.ncbi.nlm.nih.gov/pubmed/30683880 |
| IgG-seq identifies immune-reactive enteric bacteria in Crohn's disease with spondyloarthritis. | Maldarelli GA, Metz M, Oguntunmibi S, Tran N, Xiang G, Lukin D, Scherl EJ, Longman RS | Gut microbes | 39949039 | Gut Microbes | 2025 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39949039 |
| Integrative detection of genome-wide translation using iRibo. | Turcan A, Lee J, Wacholder A, Carvunis AR | STAR protocols | 38217852 | STAR Protoc | 2024 Mar 15 | https://www.ncbi.nlm.nih.gov/pubmed/38217852 |
| GitHub is an effective platform for collaborative and reproducible laboratory research. | Chen KY, Toro-Moreno M, Subramaniam AR | ArXiv | 39990799 | ArXiv | 2025 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/39990799 |
| GitHub enables collaborative and reproducible laboratory research. | Chen KY, Toro-Moreno M, Subramaniam AR | PLoS biology | 39951468 | PLoS Biol | 2025 Feb | https://www.ncbi.nlm.nih.gov/pubmed/39951468 |
| Immunopeptidomics for autoimmunity: unlocking the chamber of immune secrets. | Arshad S, Cameron B, Joglekar AV | NPJ systems biology and applications | 39833247 | NPJ Syst Biol Appl | 2025 Jan 17 | https://www.ncbi.nlm.nih.gov/pubmed/39833247 |
| High-quality peptide evidence for annotating non-canonical open reading frames as human proteins. | Deutsch EW, Kok LW, Mudge JM, Ruiz-Orera J, Fierro-Monti I, Sun Z, Abelin JG, Alba MM, Aspden JL, Bazzini AA, Bruford EA, Brunet MA, Calviello L, Carr SA, Carvunis AR, Chothani S, Clauwaert J, Dean K, Faridi P, Frankish A, Hubner N, Ingolia NT, Magrane M, Martin MJ, Martinez TF, Menschaert G, Ohler U, Orchard S, Rackham O, Roucou X, Slavoff SA, Valen E, Wacholder A, Weissman JS, Wu W, Xie Z, Choudhary J, Bassani-Sternberg M, Vizcaíno JA, Ternette N, Moritz RL, Prensner JR, van Heesch S | bioRxiv : the preprint server for biology | 39314370 | bioRxiv | 2024 Sep 9 | https://www.ncbi.nlm.nih.gov/pubmed/39314370 |
| 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 |
| Pseudomonas aeruginosa modulates both Caenorhabditis elegans attraction and pathogenesis by regulating nitrogen assimilation. | Marogi JG, Murphy CT, Myhrvold C, Gitai Z | Nature communications | 39256376 | Nat Commun | 2024 Sep 10 | https://www.ncbi.nlm.nih.gov/pubmed/39256376 |
| 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 |
| 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 |
| 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 |
| P. aeruginosa controls both C. elegans attraction and pathogenesis by regulating nitrogen assimilation. | Marogi JG, Murphy CT, Myhrvold C, Gitai Z | bioRxiv : the preprint server for biology | 38077073 | bioRxiv | 2023 Nov 29 | https://www.ncbi.nlm.nih.gov/pubmed/38077073 |
| 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 |
| A Critical Role for Fas-Mediated Off-Target Tumor Killing in T-cell Immunotherapy. | Upadhyay R, Boiarsky JA, Pantsulaia G, Svensson-Arvelund J, Lin MJ, Wroblewska A, Bhalla S, Scholler N, Bot A, Rossi JM, Sadek N, Parekh S, Lagana A, Baccarini A, Merad M, Brown BD, Brody JD | Cancer discovery | 33334730 | Cancer Discov | 2021 Mar | https://www.ncbi.nlm.nih.gov/pubmed/33334730 |
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| 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 |
| 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 |
| Tracking and predicting the African COVID-19 pandemic. | Ssentongo P, Fronterre C, Geronimo A, Greybush SJ, Mbabazi PK, Muvawala J, Nahalamba SB, Omadi PO, Opar BT, Sinnar SA, Wang Y, Whalen AJ, Held L, Jewell C, Muwanguzi AJB, Greatrex H, Norton MM, Diggle P, Schiff SJ | medRxiv : the preprint server for health sciences | 33236036 | medRxiv | 2020 Nov 16 | https://www.ncbi.nlm.nih.gov/pubmed/33236036 |
| Gun violence incidence during the COVID-19 pandemic is higher than before the pandemic in the United States. | Ssentongo P, Fronterre C, Ssentongo AE, Advani S, Heilbrunn ES, Hazelton JP, Oh JS, McCall-Hosenfeld JS, Chinchilli VM | Scientific reports | 34675321 | Sci Rep | 2021 Oct 21 | https://www.ncbi.nlm.nih.gov/pubmed/34675321 |
| Engineering Principles and Bioengineering in Global Health. | Harper JR, Schiff SJ | Neurosurgery clinics of North America | 39244320 | Neurosurg Clin N Am | 2024 Oct | https://www.ncbi.nlm.nih.gov/pubmed/39244320 |
| 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 |
| 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 |
| IDENTIFIABILITY OF INFECTION MODEL PARAMETERS EARLY IN AN EPIDEMIC. | Sauer T, Berry T, Ebeigbe D, Norton MM, Whalen AJ, Schiff SJ | SIAM journal on control and optimization | 36338855 | SIAM J Control Optim | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36338855 |
| 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 |
| Brain imaging with portable low-field MRI. | Kimberly WT, Sorby-Adams AJ, Webb AG, Wu EX, Beekman R, Bowry R, Schiff SJ, de Havenon A, Shen FX, Sze G, Schaefer P, Iglesias JE, Rosen MS, Sheth KN | Nature reviews bioengineering | 37705717 | Nat Rev Bioeng | 2023 Sep | https://www.ncbi.nlm.nih.gov/pubmed/37705717 |
| Poisson Kalman filter for disease surveillance. | Ebeigbe D, Berry T, Schiff SJ, Sauer T | Physical review research | 39211287 | Phys Rev Res | 2020 Oct-Dec | https://www.ncbi.nlm.nih.gov/pubmed/39211287 |
| Verification of operational numerical weather prediction model forecasts of precipitation using satellite rainfall estimates over Africa. | Wang Y, Gueye M, Greybush SJ, Greatrex H, Whalen AJ, Ssentongo P, Zhang F, Jenkins GS, Schiff SJ | Meteorological applications | 39554903 | Meteorol Appl | 2023 Jan-Feb | https://www.ncbi.nlm.nih.gov/pubmed/39554903 |
| A Generalized Unscented Transformation for Probability Distributions. | Ebeigbe D, Berry T, Norton MM, Whalen AJ, Simon D, Sauer T, Schiff SJ | ArXiv | 33850954 | ArXiv | 2021 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/33850954 |
| 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 |
| mbQTL: an R/Bioconductor package for microbial quantitative trait loci (QTL) estimation. | Movassagh M, Schiff SJ, Paulson JN | Bioinformatics (Oxford, England) | 37707523 | Bioinformatics | 2023 Sep 2 | https://www.ncbi.nlm.nih.gov/pubmed/37707523 |
| Infection diagnosis in hydrocephalus CT images: a domain enriched attention learning approach. | Yu M, Peterson MR, Cherukuri V, Hehnly C, Mbabazi-Kabachelor E, Mulondo R, Nsubuga Kaaya B, Broach JR, Schiff SJ, Monga V | Journal of neural engineering | 37253355 | J Neural Eng | 2023 Jun 16 | https://www.ncbi.nlm.nih.gov/pubmed/37253355 |
| Short-term and Long-term Rates of Postacute Sequelae of SARS-CoV-2 Infection: A Systematic Review. | Groff D, Sun A, Ssentongo AE, Ba DM, Parsons N, Poudel GR, Lekoubou A, Oh JS, Ericson JE, Ssentongo P, Chinchilli VM | JAMA network open | 34643720 | JAMA Netw Open | 2021 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/34643720 |
| Normal childhood brain growth and a universal sex and anthropomorphic relationship to cerebrospinal fluid. | Peterson MR, Cherukuri V, Paulson JN, Ssentongo P, Kulkarni AV, Warf BC, Monga V, Schiff SJ | Journal of neurosurgery. Pediatrics | 34243147 | J Neurosurg Pediatr | 2021 Oct 1 | https://www.ncbi.nlm.nih.gov/pubmed/34243147 |
| 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 |
| 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 |
| 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 |
| Differential richness inference for 16S rRNA marker gene surveys. | Kumar MS, Slud EV, Hehnly C, Zhang L, Broach J, Irizarry RA, Schiff SJ, Paulson JN | Genome biology | 35915508 | Genome Biol | 2022 Aug 1 | https://www.ncbi.nlm.nih.gov/pubmed/35915508 |
| Pan-African evolution of within- and between-country COVID-19 dynamics. | Ssentongo P, Fronterre C, Geronimo A, Greybush SJ, Mbabazi PK, Muvawala J, Nahalamba SB, Omadi PO, Opar BT, Sinnar SA, Wang Y, Whalen AJ, Held L, Jewell C, Muwanguzi AJB, Greatrex H, Norton MM, Diggle PJ, Schiff SJ | Proceedings of the National Academy of Sciences of the United States of America | 34187879 | Proc Natl Acad Sci U S A | 2021 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/34187879 |
| Prevalence and determinants of cervical cancer screening in five sub-Saharan African countries: A population-based study. | Ba DM, Ssentongo P, Musa J, Agbese E, Diakite B, Traore CB, Wang S, Maiga M | Cancer epidemiology | 33756434 | Cancer Epidemiol | 2021 Jun | https://www.ncbi.nlm.nih.gov/pubmed/33756434 |
| Congenital Cytomegalovirus Infection Burden and Epidemiologic Risk Factors in Countries With Universal Screening: A Systematic Review and Meta-analysis. | Ssentongo P, Hehnly C, Birungi P, Roach MA, Spady J, Fronterre C, Wang M, Murray-Kolb LE, Al-Shaar L, Chinchilli VM, Broach JR, Ericson JE, Schiff SJ | JAMA network open | 34424308 | JAMA Netw Open | 2021 Aug 2 | https://www.ncbi.nlm.nih.gov/pubmed/34424308 |
| Rates and risk factors for suicidal ideation, suicide attempts and suicide deaths in persons with HIV: a systematic review and meta-analysis. | Pelton M, Ciarletta M, Wisnousky H, Lazzara N, Manglani M, Ba DM, Chinchillli VM, Du P, Ssentongo AE, Ssentongo P | General psychiatry | 33912798 | Gen Psychiatr | 2021 | https://www.ncbi.nlm.nih.gov/pubmed/33912798 |
| Identification of White Matter Hyperintensities in Routine Emergency Department Visits Using Portable Bedside Magnetic Resonance Imaging. | de Havenon A, Parasuram NR, Crawford AL, Mazurek MH, Chavva IR, Yadlapalli V, Iglesias JE, Rosen MS, Falcone GJ, Payabvash S, Sze G, Sharma R, Schiff SJ, Safdar B, Wira C, Kimberly WT, Sheth KN | Journal of the American Heart Association | 37218590 | J Am Heart Assoc | 2023 Jun 6 | https://www.ncbi.nlm.nih.gov/pubmed/37218590 |
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| Herpes simplex virus suppresses necroptosis in human cells. | Guo H, Omoto S, Harris PA, Finger JN, Bertin J, Gough PJ, Kaiser WJ, Mocarski ES | Cell host & microbe | 25674983 | Cell Host Microbe | 2015 Feb 11 | https://www.ncbi.nlm.nih.gov/pubmed/25674983 |
| Suppression of RIP3-dependent necroptosis by human cytomegalovirus. | Omoto S, Guo H, Talekar GR, Roback L, Kaiser WJ, Mocarski ES | The Journal of biological chemistry | 25778401 | J Biol Chem | 2015 May 1 | https://www.ncbi.nlm.nih.gov/pubmed/25778401 |
| Retinoic Acid Inducible Gene 1 Protein (RIG1)-Like Receptor Pathway Is Required for Efficient Nuclear Reprogramming. | Sayed N, Ospino F, Himmati F, Lee J, Chanda P, Mocarski ES, Cooke JP | Stem cells (Dayton, Ohio) | 28276156 | Stem Cells | 2017 May | https://www.ncbi.nlm.nih.gov/pubmed/28276156 |
| Species-independent contribution of ZBP1/DAI/DLM-1-triggered necroptosis in host defense against HSV1. | Guo H, Gilley RP, Fisher A, Lane R, Landsteiner VJ, Ragan KB, Dovey CM, Carette JE, Upton JW, Mocarski ES, Kaiser WJ | Cell death & disease | 30050136 | Cell Death Dis | 2018 Jul 26 | https://www.ncbi.nlm.nih.gov/pubmed/30050136 |
| Caspase-8 and RIP kinases regulate bacteria-induced innate immune responses and cell death. | Weng D, Marty-Roix R, Ganesan S, Proulx MK, Vladimer GI, Kaiser WJ, Mocarski ES, Pouliot K, Chan FK, Kelliher MA, Harris PA, Bertin J, Gough PJ, Shayakhmetov DM, Goguen JD, Fitzgerald KA, Silverman N, Lien E | Proceedings of the National Academy of Sciences of the United States of America | 24799678 | Proc Natl Acad Sci U S A | 2014 May 20 | https://www.ncbi.nlm.nih.gov/pubmed/24799678 |
| Manipulation of apoptosis and necroptosis signaling by herpesviruses. | Guo H, Kaiser WJ, Mocarski ES | Medical microbiology and immunology | 25828583 | Med Microbiol Immunol | 2015 Jun | https://www.ncbi.nlm.nih.gov/pubmed/25828583 |
| Caspase-8 as an Effector and Regulator of NLRP3 Inflammasome Signaling. | Antonopoulos C, Russo HM, El Sanadi C, Martin BN, Li X, Kaiser WJ, Mocarski ES, Dubyak GR | The Journal of biological chemistry | 26100631 | J Biol Chem | 2015 Aug 14 | https://www.ncbi.nlm.nih.gov/pubmed/26100631 |
| TNFR1-dependent cell death drives inflammation in Sharpin-deficient mice. | Rickard JA, Anderton H, Etemadi N, Nachbur U, Darding M, Peltzer N, Lalaoui N, Lawlor KE, Vanyai H, Hall C, Bankovacki A, Gangoda L, Wong WW, Corbin J, Huang C, Mocarski ES, Murphy JM, Alexander WS, Voss AK, Vaux DL, Kaiser WJ, Walczak H, Silke J | eLife | 25443632 | Elife | 2014 Dec 2 | https://www.ncbi.nlm.nih.gov/pubmed/25443632 |
| Remarkably Robust Antiviral Immune Response despite Combined Deficiency in Caspase-8 and RIPK3. | Feng Y, Livingston-Rosanoff D, Roback L, Sundararajan A, Speck SH, Mocarski ES, Daley-Bauer LP | Journal of immunology (Baltimore, Md. : 1950) | 30194111 | J Immunol | 2018 Oct 15 | https://www.ncbi.nlm.nih.gov/pubmed/30194111 |
| Caspase-8 modulates dectin-1 and complement receptor 3-driven IL-1β production in response to β-glucans and the fungal pathogen, Candida albicans. | Ganesan S, Rathinam VAK, Bossaller L, Army K, Kaiser WJ, Mocarski ES, Dillon CP, Green DR, Mayadas TN, Levitz SM, Hise AG, Silverman N, Fitzgerald KA | Journal of immunology (Baltimore, Md. : 1950) | 25063877 | J Immunol | 2014 Sep 1 | https://www.ncbi.nlm.nih.gov/pubmed/25063877 |
| Cutting Edge: RIP1 kinase activity is dispensable for normal development but is a key regulator of inflammation in SHARPIN-deficient mice. | Berger SB, Kasparcova V, Hoffman S, Swift B, Dare L, Schaeffer M, Capriotti C, Cook M, Finger J, Hughes-Earle A, Harris PA, Kaiser WJ, Mocarski ES, Bertin J, Gough PJ | Journal of immunology (Baltimore, Md. : 1950) | 24821972 | J Immunol | 2014 Jun 15 | https://www.ncbi.nlm.nih.gov/pubmed/24821972 |
| Mouse cytomegalovirus M36 and M45 death suppressors cooperate to prevent inflammation resulting from antiviral programmed cell death pathways. | Daley-Bauer LP, Roback L, Crosby LN, McCormick AL, Feng Y, Kaiser WJ, Mocarski ES | Proceedings of the National Academy of Sciences of the United States of America | 28292903 | Proc Natl Acad Sci U S A | 2017 Mar 28 | https://www.ncbi.nlm.nih.gov/pubmed/28292903 |
| T cell-intrinsic ASC critically promotes T(H)17-mediated experimental autoimmune encephalomyelitis. | Martin BN, Wang C, Zhang CJ, Kang Z, Gulen MF, Zepp JA, Zhao J, Bian G, Do JS, Min B, Pavicic PG Jr, El-Sanadi C, Fox PL, Akitsu A, Iwakura Y, Sarkar A, Wewers MD, Kaiser WJ, Mocarski ES, Rothenberg ME, Hise AG, Dubyak GR, Ransohoff RM, Li X | Nature immunology | 26998763 | Nat Immunol | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26998763 |
| Caspase-8 restricts natural killer cell accumulation during MCMV Infection. | Feng Y, Daley-Bauer LP, Roback L, Potempa M, Lanier LL, Mocarski ES | Medical microbiology and immunology | 31115653 | Med Microbiol Immunol | 2019 Aug | https://www.ncbi.nlm.nih.gov/pubmed/31115653 |
| Caspase-8 restricts antiviral CD8 T cell hyperaccumulation. | Feng Y, Daley-Bauer LP, Roback L, Guo H, Koehler HS, Potempa M, Lanier LL, Mocarski ES | Proceedings of the National Academy of Sciences of the United States of America | 31285326 | Proc Natl Acad Sci U S A | 2019 Jul 23 | https://www.ncbi.nlm.nih.gov/pubmed/31285326 |
| Caspase-8 Collaborates with Caspase-11 to Drive Tissue Damage and Execution of Endotoxic Shock. | Mandal P, Feng Y, Lyons JD, Berger SB, Otani S, DeLaney A, Tharp GK, Maner-Smith K, Burd EM, Schaeffer M, Hoffman S, Capriotti C, Roback L, Young CB, Liang Z, Ortlund EA, DiPaolo NC, Bosinger S, Bertin J, Gough PJ, Brodsky IE, Coopersmith CM, Shayakhmetov DM, Mocarski ES | Immunity | 30021146 | Immunity | 2018 Jul 17 | https://www.ncbi.nlm.nih.gov/pubmed/30021146 |
| Proteasome inhibition blocks necroptosis by attenuating death complex aggregation. | Ali M, Mocarski ES | Cell death & disease | 29497034 | Cell Death Dis | 2018 Mar 1 | https://www.ncbi.nlm.nih.gov/pubmed/29497034 |
| RIP1 suppresses innate immune necrotic as well as apoptotic cell death during mammalian parturition. | Kaiser WJ, Daley-Bauer LP, Thapa RJ, Mandal P, Berger SB, Huang C, Sundararajan A, Guo H, Roback L, Speck SH, Bertin J, Gough PJ, Balachandran S, Mocarski ES | Proceedings of the National Academy of Sciences of the United States of America | 24821786 | Proc Natl Acad Sci U S A | 2014 May 27 | https://www.ncbi.nlm.nih.gov/pubmed/24821786 |
| Herpes simplex virus 1 ICP6 impedes TNF receptor 1-induced necrosome assembly during compartmentalization to detergent-resistant membrane vesicles. | Ali M, Roback L, Mocarski ES | The Journal of biological chemistry | 30504227 | J Biol Chem | 2019 Jan 18 | https://www.ncbi.nlm.nih.gov/pubmed/30504227 |
| RIPK3 Activates Parallel Pathways of MLKL-Driven Necroptosis and FADD-Mediated Apoptosis to Protect against Influenza A Virus. | Nogusa S, Thapa RJ, Dillon CP, Liedmann S, Oguin TH 3rd, Ingram JP, Rodriguez DA, Kosoff R, Sharma S, Sturm O, Verbist K, Gough PJ, Bertin J, Hartmann BM, Sealfon SC, Kaiser WJ, Mocarski ES, López CB, Thomas PG, Oberst A, Green DR, Balachandran S | Cell host & microbe | 27321907 | Cell Host Microbe | 2016 Jul 13 | https://www.ncbi.nlm.nih.gov/pubmed/27321907 |
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| High-Throughput Measurement of Binding Kinetics by mRNA Display and Next-Generation Sequencing. | Jalali-Yazdi F, Lai LH, Takahashi TT, Roberts RW | Angewandte Chemie (International ed. in English) | 26914638 | Angew Chem Int Ed Engl | 2016 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/26914638 |
| General, Label-Free Method for Determining K(d) and Ligand Concentration Simultaneously. | Jalali-Yazdi F, Takahashi TT, Roberts RW | Analytical chemistry | 26485531 | Anal Chem | 2015 Dec 1 | https://www.ncbi.nlm.nih.gov/pubmed/26485531 |
| Immune defense mechanisms in the Caenorhabditis elegans intestinal epithelium. | Pukkila-Worley R, Ausubel FM | Current opinion in immunology | 22236697 | Curr Opin Immunol | 2012 Feb | https://www.ncbi.nlm.nih.gov/pubmed/22236697 |
| Mitochondrial UPR-regulated innate immunity provides resistance to pathogen infection. | Pellegrino MW, Nargund AM, Kirienko NV, Gillis R, Fiorese CJ, Haynes CM | Nature | 25274306 | Nature | 2014 Dec 18 | https://www.ncbi.nlm.nih.gov/pubmed/25274306 |
| Insect-derived cecropins display activity against Acinetobacter baumannii in a whole-animal high-throughput Caenorhabditis elegans model. | Jayamani E, Rajamuthiah R, Larkins-Ford J, Fuchs BB, Conery AL, Vilcinskas A, Ausubel FM, Mylonakis E | Antimicrobial agents and chemotherapy | 25583713 | Antimicrob Agents Chemother | 2015 Mar | https://www.ncbi.nlm.nih.gov/pubmed/25583713 |
| Host translational inhibition by Pseudomonas aeruginosa Exotoxin A Triggers an immune response in Caenorhabditis elegans. | McEwan DL, Kirienko NV, Ausubel FM | Cell host & microbe | 22520464 | Cell Host Microbe | 2012 Apr 19 | https://www.ncbi.nlm.nih.gov/pubmed/22520464 |
| Pseudomonas aeruginosa disrupts Caenorhabditis elegans iron homeostasis, causing a hypoxic response and death. | Kirienko NV, Kirienko DR, Larkins-Ford J, Wählby C, Ruvkun G, Ausubel FM | Cell host & microbe | 23601103 | Cell Host Microbe | 2013 Apr 17 | https://www.ncbi.nlm.nih.gov/pubmed/23601103 |
| Aberrant Activation of p38 MAP Kinase-Dependent Innate Immune Responses Is Toxic to Caenorhabditis elegans. | Cheesman HK, Feinbaum RL, Thekkiniath J, Dowen RH, Conery AL, Pukkila-Worley R | G3 (Bethesda, Md.) | 26818074 | G3 (Bethesda) | 2016 Jan 27 | https://www.ncbi.nlm.nih.gov/pubmed/26818074 |
| A High-Content, Phenotypic Screen Identifies Fluorouridine as an Inhibitor of Pyoverdine Biosynthesis and Pseudomonas aeruginosa Virulence. | Kirienko DR, Revtovich AV, Kirienko NV | mSphere | 27579370 | mSphere | 2016 Jul-Aug | https://www.ncbi.nlm.nih.gov/pubmed/27579370 |
| The evolutionarily conserved mediator subunit MDT-15/MED15 links protective innate immune responses and xenobiotic detoxification. | Pukkila-Worley R, Feinbaum RL, McEwan DL, Conery AL, Ausubel FM | PLoS pathogens | 24875643 | PLoS Pathog | 2014 May | https://www.ncbi.nlm.nih.gov/pubmed/24875643 |
| Stimulation of host immune defenses by a small molecule protects C. elegans from bacterial infection. | Pukkila-Worley R, Feinbaum R, Kirienko NV, Larkins-Ford J, Conery AL, Ausubel FM | PLoS genetics | 22719261 | PLoS Genet | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22719261 |
| Genome-wide identification of Pseudomonas aeruginosa virulence-related genes using a Caenorhabditis elegans infection model. | Feinbaum RL, Urbach JM, Liberati NT, Djonovic S, Adonizio A, Carvunis AR, Ausubel FM | PLoS pathogens | 22911607 | PLoS Pathog | 2012 | https://www.ncbi.nlm.nih.gov/pubmed/22911607 |
| Antibacterial properties of 3-(phenylsulfonyl)-2-pyrazinecarbonitrile. | Rajamuthiah R, Jayamani E, Majed H, Conery AL, Kim W, Kwon B, Fuchs BB, Kelso MJ, Ausubel FM, Mylonakis E | Bioorganic & medicinal chemistry letters | 26459212 | Bioorg Med Chem Lett | 2015 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/26459212 |
| Investment in secreted enzymes during nutrient-limited growth is utility dependent. | Cezairliyan B, Ausubel FM | Proceedings of the National Academy of Sciences of the United States of America | 28847943 | Proc Natl Acad Sci U S A | 2017 Sep 12 | https://www.ncbi.nlm.nih.gov/pubmed/28847943 |
| Pseudomonas aeruginosa RhlR is required to neutralize the cellular immune response in a Drosophila melanogaster oral infection model. | Limmer S, Haller S, Drenkard E, Lee J, Yu S, Kocks C, Ausubel FM, Ferrandon D | Proceedings of the National Academy of Sciences of the United States of America | 21987808 | Proc Natl Acad Sci U S A | 2011 Oct 18 | https://www.ncbi.nlm.nih.gov/pubmed/21987808 |
| An image analysis toolbox for high-throughput C. elegans assays. | Wählby C, Kamentsky L, Liu ZH, Riklin-Raviv T, Conery AL, O'Rourke EJ, Sokolnicki KL, Visvikis O, Ljosa V, Irazoqui JE, Golland P, Ruvkun G, Ausubel FM, Carpenter AE | Nature methods | 22522656 | Nat Methods | 2012 Apr 22 | https://www.ncbi.nlm.nih.gov/pubmed/22522656 |
| RESOLVING CLUSTERED WORMS VIA PROBABILISTIC SHAPE MODELS. | Wählby C, Riklin-Raviv T, Ljosa V, Conery AL, Golland P, Ausubel FM, Carpenter AE | Proceedings. IEEE International Symposium on Biomedical Imaging | 21383863 | Proc IEEE Int Symp Biomed Imaging | 2010 Jun 21 | https://www.ncbi.nlm.nih.gov/pubmed/21383863 |
| Morphology-guided graph search for untangling objects: C. elegans analysis. | Raviv TR, Ljosa V, Conery AL, Ausubel FM, Carpenter AE, Golland P, Wählby C | Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention | 20879454 | Med Image Comput Comput Assist Interv | 2010 | https://www.ncbi.nlm.nih.gov/pubmed/20879454 |
| Trehalose biosynthesis promotes Pseudomonas aeruginosa pathogenicity in plants. | Djonović S, Urbach JM, Drenkard E, Bush J, Feinbaum R, Ausubel JL, Traficante D, Risech M, Kocks C, Fischbach MA, Priebe GP, Ausubel FM | PLoS pathogens | 23505373 | PLoS Pathog | 2013 Mar | https://www.ncbi.nlm.nih.gov/pubmed/23505373 |
| Repurposing salicylanilide anthelmintic drugs to combat drug resistant Staphylococcus aureus. | Rajamuthiah R, Fuchs BB, Conery AL, Kim W, Jayamani E, Kwon B, Ausubel FM, Mylonakis E | PloS one | 25897961 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/25897961 |
| A Defensin from the Model Beetle Tribolium castaneum Acts Synergistically with Telavancin and Daptomycin against Multidrug Resistant Staphylococcus aureus. | Rajamuthiah R, Jayamani E, Conery AL, Fuchs BB, Kim W, Johnston T, Vilcinskas A, Ausubel FM, Mylonakis E | PloS one | 26062137 | PLoS One | 2015 | https://www.ncbi.nlm.nih.gov/pubmed/26062137 |
| Mitophagy confers resistance to siderophore-mediated killing by Pseudomonas aeruginosa. | Kirienko NV, Ausubel FM, Ruvkun G | Proceedings of the National Academy of Sciences of the United States of America | 25624506 | Proc Natl Acad Sci U S A | 2015 Feb 10 | https://www.ncbi.nlm.nih.gov/pubmed/25624506 |
| Quorum-sensing regulator RhlR but not its autoinducer RhlI enables Pseudomonas to evade opsonization. | Haller S, Franchet A, Hakkim A, Chen J, Drenkard E, Yu S, Schirmeier S, Li Z, Martins N, Ausubel FM, Liégeois S, Ferrandon D | EMBO reports | 29523648 | EMBO Rep | 2018 May | https://www.ncbi.nlm.nih.gov/pubmed/29523648 |
| Identification of Pseudomonas aeruginosa phenazines that kill Caenorhabditis elegans. | Cezairliyan B, Vinayavekhin N, Grenfell-Lee D, Yuen GJ, Saghatelian A, Ausubel FM | PLoS pathogens | 23300454 | PLoS Pathog | 2013 Jan | https://www.ncbi.nlm.nih.gov/pubmed/23300454 |
| Assessing Pseudomonas virulence with a nonmammalian host: Drosophila melanogaster. | Haller S, Limmer S, Ferrandon D | Methods in molecular biology (Clifton, N.J.) | 24818946 | Methods Mol Biol | 2014 | https://www.ncbi.nlm.nih.gov/pubmed/24818946 |
| High-throughput screening for novel anti-infectives using a C. elegans pathogenesis model. | Conery AL, Larkins-Ford J, Ausubel FM, Kirienko NV | Current protocols in chemical biology | 24652621 | Curr Protoc Chem Biol | 2014 Mar 14 | https://www.ncbi.nlm.nih.gov/pubmed/24652621 |
| Tribbles ortholog NIPI-3 and bZIP transcription factor CEBP-1 regulate a Caenorhabditis elegans intestinal immune surveillance pathway. | McEwan DL, Feinbaum RL, Stroustrup N, Haas W, Conery AL, Anselmo A, Sadreyev R, Ausubel FM | BMC biology | 27927200 | BMC Biol | 2016 Dec 7 | https://www.ncbi.nlm.nih.gov/pubmed/27927200 |
| The Pseudomonas aeruginosa accessory genome elements influence virulence towards Caenorhabditis elegans. | Vasquez-Rifo A, Veksler-Lublinsky I, Cheng Z, Ausubel FM, Ambros V | Genome biology | 31823826 | Genome Biol | 2019 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/31823826 |
| ABCDs of the Relative Contributions of Pseudomonas aeruginosa Quorum Sensing Systems to Virulence in Diverse Nonvertebrate Hosts. | Vasquez-Rifo A, Cook J, McEwan DL, Shikara D, Ausubel FM, Di Cara F, Cheng Z | mBio | 35311532 | mBio | 2022 Apr 26 | https://www.ncbi.nlm.nih.gov/pubmed/35311532 |
| Somatic STAT3 mutations in large granular lymphocytic leukemia. | Koskela HL, Eldfors S, Ellonen P, van Adrichem AJ, Kuusanmäki H, Andersson EI, Lagström S, Clemente MJ, Olson T, Jalkanen SE, Majumder MM, Almusa H, Edgren H, Lepistö M, Mattila P, Guinta K, Koistinen P, Kuittinen T, Penttinen K, Parsons A, Knowles J, Saarela J, Wennerberg K, Kallioniemi O, Porkka K, Loughran TP Jr, Heckman CA, Maciejewski JP, Mustjoki S | The New England journal of medicine | 22591296 | N Engl J Med | 2012 May 17 | https://www.ncbi.nlm.nih.gov/pubmed/22591296 |
| Discovery of somatic STAT5b mutations in large granular lymphocytic leukemia. | Rajala HL, Eldfors S, Kuusanmäki H, van Adrichem AJ, Olson T, Lagström S, Andersson EI, Jerez A, Clemente MJ, Yan Y, Zhang D, Awwad A, Ellonen P, Kallioniemi O, Wennerberg K, Porkka K, Maciejewski JP, Loughran TP Jr, Heckman C, Mustjoki S | Blood | 23596048 | Blood | 2013 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/23596048 |
| Activating somatic mutations outside the SH2-domain of STAT3 in LGL leukemia. | Andersson E, Kuusanmäki H, Bortoluzzi S, Lagström S, Parsons A, Rajala H, van Adrichem A, Eldfors S, Olson T, Clemente MJ, Laasonen A, Ellonen P, Heckman C, Loughran TP, Maciejewski JP, Mustjoki S | Leukemia | 26419508 | Leukemia | 2016 May | https://www.ncbi.nlm.nih.gov/pubmed/26419508 |
| High incidence of activating STAT5B mutations in CD4-positive T-cell large granular lymphocyte leukemia. | Andersson EI, Tanahashi T, Sekiguchi N, Gasparini VR, Bortoluzzi S, Kawakami T, Matsuda K, Mitsui T, Eldfors S, Bortoluzzi S, Coppe A, Binatti A, Lagström S, Ellonen P, Fukushima N, Nishina S, Senoo N, Sakai H, Nakazawa H, Kwong YL, Loughran TP, Maciejewski JP, Mustjoki S, Ishida F | Blood | 27697773 | Blood | 2016 Nov 17 | https://www.ncbi.nlm.nih.gov/pubmed/27697773 |
| Novel somatic mutations in large granular lymphocytic leukemia affecting the STAT-pathway and T-cell activation. | Andersson EI, Rajala HL, Eldfors S, Ellonen P, Olson T, Jerez A, Clemente MJ, Kallioniemi O, Porkka K, Heckman C, Loughran TP Jr, Maciejewski JP, Mustjoki S | Blood cancer journal | 24317090 | Blood Cancer J | 2013 Dec 6 | https://www.ncbi.nlm.nih.gov/pubmed/24317090 |
| Efficacy of rabbit anti-thymocyte globulin in severe aplastic anemia. | Afable MG 2nd, Shaik M, Sugimoto Y, Elson P, Clemente M, Makishima H, Sekeres MA, Lichtin A, Advani A, Kalaycio M, Tiu RV, O'Keefe CL, Maciejewski JP | Haematologica | 21606164 | Haematologica | 2011 Sep | https://www.ncbi.nlm.nih.gov/pubmed/21606164 |
| The analysis of clonal diversity and therapy responses using STAT3 mutations as a molecular marker in large granular lymphocytic leukemia. | Rajala HL, Olson T, Clemente MJ, Lagström S, Ellonen P, Lundan T, Hamm DE, Zaman SA, Lopez Marti JM, Andersson EI, Jerez A, Porkka K, Maciejewski JP, Loughran TP, Mustjoki S | Haematologica | 25281507 | Haematologica | 2015 Jan | https://www.ncbi.nlm.nih.gov/pubmed/25281507 |
| Returns of the living dead: therapeutic action of irradiated and mitotically inactivated embryonic stem cells. | Gold JD, Wu JC | Circulation research | 23104873 | Circ Res | 2012 Oct 26 | https://www.ncbi.nlm.nih.gov/pubmed/23104873 |
| Bioluminescence reporter gene imaging characterize human embryonic stem cell-derived teratoma formation. | Su W, Zhou M, Zheng Y, Fan Y, Wang L, Han Z, Kong D, Zhao RC, Wu JC, Xiang R, Li Z | Journal of cellular biochemistry | 21328457 | J Cell Biochem | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21328457 |
| Microfluidic single-cell real-time PCR for comparative analysis of gene expression patterns. | Sanchez-Freire V, Ebert AD, Kalisky T, Quake SR, Wu JC | Nature protocols | 22481529 | Nat Protoc | 2012 Apr 5 | https://www.ncbi.nlm.nih.gov/pubmed/22481529 |
| Persistent donor cell gene expression among human induced pluripotent stem cells contributes to differences with human embryonic stem cells. | Ghosh Z, Wilson KD, Wu Y, Hu S, Quertermous T, Wu JC | PloS one | 20126639 | PLoS One | 2010 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/20126639 |
| Control of Immune Response to Allogeneic Embryonic Stem Cells by CD3 Antibody-Mediated Operational Tolerance Induction. | Calderon D, Prot M, You S, Marquet C, Bellamy V, Bruneval P, Valette F, de Almeida P, Wu JC, Pucéat M, Menasché P, Chatenoud L | American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons | 26492394 | Am J Transplant | 2016 Feb | https://www.ncbi.nlm.nih.gov/pubmed/26492394 |
| Gene correction in human embryonic and induced pluripotent stem cells: promises and challenges ahead. | Narsinh KH, Wu JC | Molecular therapy : the journal of the American Society of Gene Therapy | 20514030 | Mol Ther | 2010 Jun | https://www.ncbi.nlm.nih.gov/pubmed/20514030 |
| Comparison of human induced pluripotent and embryonic stem cells: fraternal or identical twins? | Narsinh KH, Plews J, Wu JC | Molecular therapy : the journal of the American Society of Gene Therapy | 21455209 | Mol Ther | 2011 Apr | https://www.ncbi.nlm.nih.gov/pubmed/21455209 |
| Effects of long-term culture on human embryonic stem cell aging. | Xie X, Hiona A, Lee AS, Cao F, Huang M, Li Z, Cherry A, Pei X, Wu JC | Stem cells and development | 20629482 | Stem Cells Dev | 2011 Jan | https://www.ncbi.nlm.nih.gov/pubmed/20629482 |
| In vivo directed differentiation of pluripotent stem cells for skeletal regeneration. | Levi B, Hyun JS, Montoro DT, Lo DD, Chan CK, Hu S, Sun N, Lee M, Grova M, Connolly AJ, Wu JC, Gurtner GC, Weissman IL, Wan DC, Longaker MT | Proceedings of the National Academy of Sciences of the United States of America | 23169671 | Proc Natl Acad Sci U S A | 2012 Dec 11 | https://www.ncbi.nlm.nih.gov/pubmed/23169671 |
| Human Engineered Heart Muscles Engraft and Survive Long Term in a Rodent Myocardial Infarction Model. | Riegler J, Tiburcy M, Ebert A, Tzatzalos E, Raaz U, Abilez OJ, Shen Q, Kooreman NG, Neofytou E, Chen VC, Wang M, Meyer T, Tsao PS, Connolly AJ, Couture LA, Gold JD, Zimmermann WH, Wu JC | Circulation research | 26291556 | Circ Res | 2015 Sep 25 | https://www.ncbi.nlm.nih.gov/pubmed/26291556 |
| Engraftment of embryonic stem cells and differentiated progeny by host conditioning with total lymphoid irradiation and regulatory T cells. | Pan Y, Leveson-Gower DB, de Almeida PE, Pierini A, Baker J, Florek M, Nishikii H, Kim BS, Ke R, Wu JC, Negrin RS | Cell reports | 25801020 | Cell Rep | 2015 Mar 24 | https://www.ncbi.nlm.nih.gov/pubmed/25801020 |
| Alloimmune Responses of Humanized Mice to Human Pluripotent Stem Cell Therapeutics. | Kooreman NG, de Almeida PE, Stack JP, Nelakanti RV, Diecke S, Shao NY, Swijnenburg RJ, Sanchez-Freire V, Matsa E, Liu C, Connolly AJ, Hamming JF, Quax PHA, Brehm MA, Greiner DL, Shultz LD, Wu JC | Cell reports | 28834758 | Cell Rep | 2017 Aug 22 | https://www.ncbi.nlm.nih.gov/pubmed/28834758 |
| Dissecting the oncogenic and tumorigenic potential of differentiated human induced pluripotent stem cells and human embryonic stem cells. | Ghosh Z, Huang M, Hu S, Wilson KD, Dey D, Wu JC | Cancer research | 21646469 | Cancer Res | 2011 Jul 15 | https://www.ncbi.nlm.nih.gov/pubmed/21646469 |
| Pluripotent stem cells: immune to the immune system? | Pearl JI, Kean LS, Davis MM, Wu JC | Science translational medicine | 23241742 | Sci Transl Med | 2012 Dec 12 | https://www.ncbi.nlm.nih.gov/pubmed/23241742 |
| Immunogenicity of pluripotent stem cells and their derivatives. | de Almeida PE, Ransohoff JD, Nahid A, Wu JC | Circulation research | 23371903 | Circ Res | 2013 Feb 1 | https://www.ncbi.nlm.nih.gov/pubmed/23371903 |
| Short-term immunosuppression promotes engraftment of embryonic and induced pluripotent stem cells. | Pearl JI, Lee AS, Leveson-Gower DB, Sun N, Ghosh Z, Lan F, Ransohoff J, Negrin RS, Davis MM, Wu JC | Cell stem cell | 21362570 | Cell Stem Cell | 2011 Mar 4 | https://www.ncbi.nlm.nih.gov/pubmed/21362570 |
| Single cell transcriptional profiling reveals heterogeneity of human induced pluripotent stem cells. | Narsinh KH, Sun N, Sanchez-Freire V, Lee AS, Almeida P, Hu S, Jan T, Wilson KD, Leong D, Rosenberg J, Yao M, Robbins RC, Wu JC | The Journal of clinical investigation | 21317531 | J Clin Invest | 2011 Mar | https://www.ncbi.nlm.nih.gov/pubmed/21317531 |
| Costimulation-adhesion blockade is superior to cyclosporine A and prednisone immunosuppressive therapy for preventing rejection of differentiated human embryonic stem cells following transplantation. | Huber BC, Ransohoff JD, Ransohoff KJ, Riegler J, Ebert A, Kodo K, Gong Y, Sanchez-Freire V, Dey D, Kooreman NG, Diecke S, Zhang WY, Odegaard J, Hu S, Gold JD, Robbins RC, Wu JC | Stem cells (Dayton, Ohio) | 24038578 | Stem Cells | 2013 Nov | https://www.ncbi.nlm.nih.gov/pubmed/24038578 |
| Transplanted terminally differentiated induced pluripotent stem cells are accepted by immune mechanisms similar to self-tolerance. | de Almeida PE, Meyer EH, Kooreman NG, Diecke S, Dey D, Sanchez-Freire V, Hu S, Ebert A, Odegaard J, Mordwinkin NM, Brouwer TP, Lo D, Montoro DT, Longaker MT, Negrin RS, Wu JC | Nature communications | 24875164 | Nat Commun | 2014 May 30 | https://www.ncbi.nlm.nih.gov/pubmed/24875164 |
| Systemic Upregulation of IL-10 (Interleukin-10) Using a Nonimmunogenic Vector Reduces Growth and Rate of Dissecting Abdominal Aortic Aneurysm. | Adam M, Kooreman NG, Jagger A, Wagenhäuser MU, Mehrkens D, Wang Y, Kayama Y, Toyama K, Raaz U, Schellinger IN, Maegdefessel L, Spin JM, Hamming JF, Quax PHA, Baldus S, Wu JC, Tsao PS | Arteriosclerosis, thrombosis, and vascular biology | 29880489 | Arterioscler Thromb Vasc Biol | 2018 Aug | https://www.ncbi.nlm.nih.gov/pubmed/29880489 |
| Immunization-induced antigen archiving enhances local memory CD8+ T cell responses following an unrelated viral infection. | Doan TA, Forward TS, Schafer JB, Lucas ED, Fleming I, Uecker-Martin A, Ayala E, Guthmiller JJ, Hesselberth JR, Morrison TE, Tamburini BAJ | NPJ vaccines | 38514656 | NPJ Vaccines | 2024 Mar 21 | https://www.ncbi.nlm.nih.gov/pubmed/38514656 |
| Co-regulator activity of Mediator of DNA Damage Checkpoint 1 (MDC1) is associated with DNA repair dysfunction and PARP inhibitor sensitivity in lobular carcinoma of the breast. | Sottnik JL, Shackleford MT, Nesiba CS, Richer AL, Fleischmann Z, Swartz JM, Rowland CE, Musick M, Fu R, Myler LR, Opresko PL, Mehrotra S, Sokol ES, Hesselberth JR, Diamond JR, Sikora MJ | bioRxiv : the preprint server for biology | 39677775 | bioRxiv | 2025 Mar 17 | https://www.ncbi.nlm.nih.gov/pubmed/39677775 |
| GPR182 is a lipoprotein receptor for dietary fat absorption. | Sun Z, Torphy RJ, Miller EN, Darehshouri A, Vigil I, Terai T, Eck E, Sun Y, Guo Y, Yee EJ, Hu J, Kedl RM, Lasda EL, Hesselberth JR, MacLean P, Bruce KD, Randolph GJ, Schulick RD, Zhu Y | bioRxiv : the preprint server for biology | 39975353 | bioRxiv | 2025 Feb 7 | https://www.ncbi.nlm.nih.gov/pubmed/39975353 |
| Molecular tracking devices quantify antigen distribution and archiving in the murine lymph node. | Walsh SM, Sheridan RM, Lucas ED, Doan TA, Ware BC, Schafer J, Fu R, Burchill MA, Hesselberth JR, Tamburini BAJ | eLife | 33843587 | Elife | 2021 Apr 12 | https://www.ncbi.nlm.nih.gov/pubmed/33843587 |
| Islet-antigen reactive B cells display a unique phenotype and BCR repertoire in autoantibody positive and recent-onset type 1 diabetes patients. | Nicholas CA, Tensun FA, Evans SA, Toole KP, Broncucia H, Hesselberth JR, Gottlieb PA, Wells KL, Smith MJ | bioRxiv : the preprint server for biology | 38979376 | bioRxiv | 2024 Jun 25 | https://www.ncbi.nlm.nih.gov/pubmed/38979376 |
| A specific gene expression program underlies antigen archiving by lymphatic endothelial cells in mammalian lymph nodes. | Tamburini B, Sheridan R, Doan T, Lucas C, Forward T, Fleming I, Uecker-Martin A, Morrison T, Hesselberth J | Research square | 39711554 | Res Sq | 2024 Dec 10 | https://www.ncbi.nlm.nih.gov/pubmed/39711554 |
| Simultaneous measurement of biochemical phenotypes and gene expression in single cells. | Richer AL, Riemondy KA, Hardie L, Hesselberth JR | Nucleic acids research | 32286626 | Nucleic Acids Res | 2020 Jun 4 | https://www.ncbi.nlm.nih.gov/pubmed/32286626 |
| Chikungunya virus infection disrupts lymph node lymphatic endothelial cell composition and function via MARCO. | Lucas CJ, Sheridan RM, Reynoso GV, Davenport BJ, McCarthy MK, Martin A, Hesselberth JR, Hickman HD, Tamburini BA, Morrison TE | JCI insight | 38194268 | JCI Insight | 2024 Jan 9 | https://www.ncbi.nlm.nih.gov/pubmed/38194268 |
| MARCO(+) lymphatic endothelial cells sequester arthritogenic alphaviruses to limit viremia and viral dissemination. | Carpentier KS, Sheridan RM, Lucas CJ, Davenport BJ, Li FS, Lucas ED, McCarthy MK, Reynoso GV, May NA, Tamburini BAJ, Hesselberth JR, Hickman HD, Morrison TE | The EMBO journal | 34618370 | EMBO J | 2021 Nov 15 | https://www.ncbi.nlm.nih.gov/pubmed/34618370 |
| A specific and portable gene expression program underlies antigen archiving by lymphatic endothelial cells. | Sheridan RM, Doan TA, Lucas C, Forward TS, Uecker-Martin A, Morrison TE, Hesselberth JR, Tamburini BAJ | bioRxiv : the preprint server for biology | 38617225 | bioRxiv | 2024 Apr 2 | https://www.ncbi.nlm.nih.gov/pubmed/38617225 |
| Genomic Mosaicism Formed by Somatic Variation in the Aging and Diseased Brain. | Costantino I, Nicodemus J, Chun J | Genes | 34356087 | Genes (Basel) | 2021 Jul 14 | https://www.ncbi.nlm.nih.gov/pubmed/34356087 |
| Human brain small extracellular vesicles contain selectively packaged, full-length mRNA. | Ransom LS, Liu CS, Dunsmore E, Palmer CR, Nicodemus J, Ziomek D, Williams N, Chun J | Cell reports | 38578831 | Cell Rep | 2024 Apr 23 | https://www.ncbi.nlm.nih.gov/pubmed/38578831 |
| CAQK, a peptide associating with extracellular matrix components targets sites of demyelinating injuries. | Abi-Ghanem C, Jonnalagadda D, Chun J, Kihara Y, Ranscht B | Frontiers in cellular neuroscience | 36072569 | Front Cell Neurosci | 2022 | https://www.ncbi.nlm.nih.gov/pubmed/36072569 |
| Altered cell and RNA isoform diversity in aging Down syndrome brains. | Palmer CR, Liu CS, Romanow WJ, Lee MH, Chun J | Proceedings of the National Academy of Sciences of the United States of America | 34795060 | Proc Natl Acad Sci U S A | 2021 Nov 23 | https://www.ncbi.nlm.nih.gov/pubmed/34795060 |
| Somatic genomic mosaicism in the brain: Identified mutations provide challenges and opportunities for the clinic. | Chun J | Med (New York, N.Y.) | 36242998 | Med | 2022 Oct 14 | https://www.ncbi.nlm.nih.gov/pubmed/36242998 |
| RNA Isoform Diversity in Human Neurodegenerative Diseases. | Liu CS, Park C, Ngo T, Saikumar J, Palmer CR, Shahnaee A, Romanow WJ, Chun J | eNeuro | 39658200 | eNeuro | 2024 Dec | https://www.ncbi.nlm.nih.gov/pubmed/39658200 |
| Modeling the Aging Human Lung: Generation of a Senescent Human Lung Organoid Culture System. | Aspal M, Pushlar N, Melameka M, McVicar RN, Smith E, Ogunyamoju T, Kumar M, Marth JD, Chun J, Snyder EY, Leibel SL | bioRxiv : the preprint server for biology | 40060424 | bioRxiv | 2025 Feb 26 | https://www.ncbi.nlm.nih.gov/pubmed/40060424 |
| Extraction and Purification of Single Nuclei from Frozen Human Brain Tissue. | Palmer CR, Chun J | Methods in molecular biology (Clifton, N.J.) | 36399263 | Methods Mol Biol | 2023 | https://www.ncbi.nlm.nih.gov/pubmed/36399263 |
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