Single Cell Analysis (440)
Publication TitleAuthorsJournalPublication DatePage NoPubMedID
Robust RNA-Seq of aRNA-amplified single cell material collected by patch clamp.Kim, Jae Mun Hugo; Camarena, Adrian; Walker, Christopher; Lin, Ming Yi; Wolseley, Victoria; Souaiaia, Tade; Thornton, Matthew; Grubbs, Brendan; Chow, Robert H; Evgrafov, Oleg V; Knowles, James AScientific reports.2020 Feb 06;32029778
Single-cell morphology encodes metastatic potential.Wu, Pei-Hsun; Gilkes, Daniele M; Phillip, Jude M; Narkar, Akshay; Cheng, Thomas Wen-Tao; Marchand, Jorge; Lee, Meng-Horng; Li, Rong; Wirtz, DenisScience advances.2020 01;32010778
Principles and Strategies for Effective Teaching: A Workshop for Pre- and Postdoctoral Trainees in the Biomedical Sciences.Hartley, Laurel M; Ferrara, Michael J; Handelsman, Mitchell M; Rutebemberwa, Alleluiah; Wefes, IngeJournal of microbiology & biology education.2019;31890073
Identification of Neuronal Lineages in the Drosophila Peripheral Nervous System with a ''Digital'' Multi-spectral Lineage Tracing System.Veling, Macy W; Li, Ye; Veling, Mike T; Litts, Christopher; Michki, Nigel; Liu, Hao; Ye, Bing; Cai, DawenCell reports.2019 Dec 03;31801091
Association of Human iPSC Gene Signatures and X Chromosome Dosage with Two Distinct Cardiac Differentiation Trajectories.D'Antonio-Chronowska, Agnieszka; Donovan, Margaret K R; Young Greenwald, William W; Nguyen, Jennifer Phuong; Fujita, Kyohei; Hashem, Sherin; Matsui, Hiroko; Soncin, Francesca; Parast, Mana; Ward, Michelle C; Coulet, Florence; Smith, Erin N; Adler, Eric; D'Antonio, Matteo; Frazer, Kelly AStem cell reports.2019 11 12;31668852
Mastery of Transferrable Skills by Doctoral Scholars: Visualization using Digital Micro-credentialing.Mathur, Ambika; Wood, Mary E; Cano, AnnmarieChange.2018;31656316
High-throughput sequencing of the transcriptome and chromatin accessibility in the same cell.Chen, Song; Lake, Blue B; Zhang, KunNature biotechnology.2019 12;31611697
Control of cytokinesis by ?-adrenergic receptors indicates an approach for regulating cardiomyocyte endowment.Liu, Honghai; Zhang, Cheng-Hai; Ammanamanchi, Niyatie; Suresh, Sangita; Lewarchik, Christopher; Rao, Krithika; Uys, Gerrida M; Han, Lu; Abrial, Maryline; Yimlamai, Dean; Ganapathy, Balakrishnan; Guillermier, Christelle; Chen, Nathalie; Khaladkar, Mugdha; Spaethling, Jennifer; Eberwine, James H; Kim, Junhyong; Walsh, Stuart; Choudhury, Sangita; Little, Kathryn; Francis, Kimberly; Sharma, Mahesh; Viegas, Melita; Bais, Abha; Kostka, Dennis; Ding, Jun; Bar-Joseph, Ziv; Wu, Yijen; Yechoor, Vijay; Moulik, Mousumi; Johnson, Jennifer; Weinberg, Jacqueline; Reyes-Múgica, Miguel; Steinhauser, Matthew L; Kühn, BernhardScience translational medicine.2019 Oct 09;31597755
Mixing high-viscosity fluids via acoustically driven bubbles.Orbay, Sinem; Ozcelik, Adem; Lata, James; Kaynak, Murat; Wu, Mengxi; Huang, Tony JunJournal of micromechanics and microengineering : structures, devices, and systems.2017;31588165
Allele-specific NKX2-5 binding underlies multiple genetic associations with human electrocardiographic traits.Benaglio, Paola; D'Antonio-Chronowska, Agnieszka; Ma, Wubin; Yang, Feng; Young Greenwald, William W; Donovan, Margaret K R; DeBoever, Christopher; Li, He; Drees, Frauke; Singhal, Sanghamitra; Matsui, Hiroko; van Setten, Jessica; Sotoodehnia, Nona; Gaulton, Kyle J; Smith, Erin N; D'Antonio, Matteo; Rosenfeld, Michael G; Frazer, Kelly ANature genetics.2019 10;31570892
Sample Preparation and Analysis of Single Cells Using High Performance MALDI FTICR Mass Spectrometry.Yang, Bo; Tsui, Tina; Caprioli, Richard M; Norris, Jeremy LMethods in molecular biology (Clifton, N.J.).2020;31565771
Anti-myeloma activity and molecular logic operation by Natural Killer cells in microfluidic droplets.Sarkar, Saheli; McKenney, Seamus; Sabhachandani, Pooja; Adler, James; Hu, Xiaozhe; Stroopinksy, Dina; Rosenblatt, Jacalyn; Avigan, David; Konry, TaniaSensors and actuators. B, Chemical.2019 Mar 01;31537955
Biophysical and biomolecular determination of cellular age in humans.Phillip, Jude M; Wu, Pei-Hsun; Gilkes, Daniele M; Williams, Wadsworth; McGovern, Shaun; Daya, Jena; Chen, Jonathan; Aifuwa, Ivie; Lee, Jerry S H; Fan, Rong; Walston, Jeremy; Wirtz, DenisNature biomedical engineering.2017 Jul;31372309
High-fidelity amplified FISH for the detection and allelic discrimination of single mRNA molecules.Marras, Salvatore A E; Bushkin, Yuri; Tyagi, SanjayProceedings of the National Academy of Sciences of the United States of America.2019 Jul 09;31221755
Organization of Embryonic Morphogenesis via Mechanical Information.Das, Dipjyoti; Jülich, Dörthe; Schwendinger-Schreck, Jamie; Guillon, Emilie; Lawton, Andrew K; Dray, Nicolas; Emonet, Thierry; O'Hern, Corey S; Shattuck, Mark D; Holley, Scott ADevelopmental cell.2019 Jun 17;31178400
Understanding heterogeneous tumor microenvironment in metastatic melanoma.Yan, Yiyi; Leontovich, Alexey A; Gerdes, Michael J; Desai, Keyur; Dong, Jinhong; Sood, Anup; Santamaria-Pang, Alberto; Mansfield, Aaron S; Chadwick, Chrystal; Zhang, Rong; Nevala, Wendy K; Flotte, Thomas J; Ginty, Fiona; Markovic, Svetomir NPloS one.2019;31166985
In vivo study of gene expression with an enhanced dual-color fluorescent transcriptional timer.He, Li; Binari, Richard; Huang, Jiuhong; Falo-Sanjuan, Julia; Perrimon, NorberteLife.2019 May 29;31140975
Single-cell technologies for profiling T cells to enable monitoring of immunotherapies.An, Xingyue; Varadarajan, NavinCurrent opinion in chemical engineering.2018 Mar;31131208
Human iPSC-Derived Retinal Pigment Epithelium: A Model System for Prioritizing and Functionally Characterizing Causal Variants at AMD Risk Loci.Smith, Erin N; D'Antonio-Chronowska, Agnieszka; Greenwald, William W; Borja, Victor; Aguiar, Lana R; Pogue, Robert; Matsui, Hiroko; Benaglio, Paola; Borooah, Shyamanga; D'Antonio, Matteo; Ayyagari, Radha; Frazer, Kelly AStem cell reports.2019 Jun 11;31080113
Epi-illumination SPIM for volumetric imaging with high spatial-temporal resolution.Yang, Bin; Chen, Xingye; Wang, Yina; Feng, Siyu; Pessino, Veronica; Stuurman, Nico; Cho, Nathan H; Cheng, Karen W; Lord, Samuel J; Xu, Linfeng; Xie, Dan; Mullins, R Dyche; Leonetti, Manuel D; Huang, BoNature methods.2019 06;31061492
A microfluidic assay for the quantification of the metastatic propensity of breast cancer specimens.Yankaskas, Christopher L; Thompson, Keyata N; Paul, Colin D; Vitolo, Michele I; Mistriotis, Panagiotis; Mahendra, Ankit; Bajpai, Vivek K; Shea, Daniel J; Manto, Kristen M; Chai, Andreas C; Varadarajan, Navin; Kontrogianni-Konstantopoulos, Aikaterini; Martin, Stuart S; Konstantopoulos, KonstantinosNature biomedical engineering.2019 Jun;31061459
Seq-Well: A Sample-Efficient, Portable Picowell Platform for Massively Parallel Single-Cell RNA Sequencing.Aicher, Toby P; Carroll, Shaina; Raddi, Gianmarco; Gierahn, Todd; Wadsworth 2nd, Marc H; Hughes, Travis K; Love, Chris; Shalek, Alex KMethods in molecular biology (Clifton, N.J.).2019;31028635
Autonomous patch-clamp robot for functional characterization of neurons in vivo: development and application to mouse visual cortex.Holst, Gregory L; Stoy, William; Yang, Bo; Kolb, Ilya; Kodandaramaiah, Suhasa B; Li, Lu; Knoblich, Ulf; Zeng, Hongkui; Haider, Bilal; Boyden, Edward S; Forest, Craig RJournal of neurophysiology.2019 Jun 01;30969898
Multi-sensory Gamma Stimulation Ameliorates Alzheimer's-Associated Pathology and Improves Cognition.Martorell, Anthony J; Paulson, Abigail L; Suk, Ho-Jun; Abdurrob, Fatema; Drummond, Gabrielle T; Guan, Webster; Young, Jennie Z; Kim, David Nam-Woo; Kritskiy, Oleg; Barker, Scarlett J; Mangena, Vamsi; Prince, Stephanie M; Brown, Emery N; Chung, Kwanghun; Boyden, Edward S; Singer, Annabelle C; Tsai, Li-HueiCell.2019 Apr 04;30879788
Optogenetic reactivation of memory ensembles in the retrosplenial cortex induces systems Sousa, André F; Cowansage, Kiriana K; Zutshi, Ipshita; Cardozo, Leonardo M; Yoo, Eun J; Leutgeb, Stefan; Mayford, MarkProceedings of the National Academy of Sciences of the United States of America.2019 Apr 23;30877252
Subtle changes in chromatin loop contact propensity are associated with differential gene regulation and expression.Greenwald, William W; Li, He; Benaglio, Paola; Jakubosky, David; Matsui, Hiroko; Schmitt, Anthony; Selvaraj, Siddarth; D'Antonio, Matteo; D'Antonio-Chronowska, Agnieszka; Smith, Erin N; Frazer, Kelly ANature communications.2019 03 05;30837461
A role for actomyosin contractility in Notch signaling.Hunter, Ginger L; He, Li; Perrimon, Norbert; Charras, Guillaume; Giniger, Edward; Baum, BuzzBMC biology.2019 02 11;30744634
Faculty perceptions and knowledge of career development of trainees in biomedical science: What do we (think we) know?Watts, Stephanie W; Chatterjee, Deepshikha; Rojewski, Julie W; Shoshkes Reiss, Carol; Baas, Tracey; Gould, Kathleen L; Brown, Abigail M; Chalkley, Roger; Brandt, Patrick; Wefes, Inge; Hyman, Linda; Ford, J KevinPloS one.2019;30699144
Comprehensive catalog of dendritically localized mRNA isoforms from sub-cellular sequencing of single mouse neurons.Middleton, Sarah A; Eberwine, James; Kim, JunhyongBMC biology.2019 01 24;30678683
Allele-specific RNA imaging shows that allelic imbalances can arise in tissues through transcriptional bursting.Symmons, Orsolya; Chang, Marcello; Mellis, Ian A; Kalish, Jennifer M; Park, Jihwan; Suszták, Katalin; Bartolomei, Marisa S; Raj, ArjunPLoS genetics.2019 01;30625149
Amendments: Author Correction: ClampFISH detects individual nucleic acid molecules using click chemistry-based amplification.Rouhanifard, Sara H; Mellis, Ian A; Dunagin, Margaret; Bayatpour, Sareh; Jiang, Connie L; Dardani, Ian; Symmons, Orsolya; Emert, Benjamin; Torre, Eduardo; Cote, Allison; Sullivan, Alessandra; Stamatoyannopoulos, John A; Raj, ArjunNature biotechnology.2019 01 03;30605160
Visualizing and Interpreting Single-Cell Gene Expression Datasets with Similarity Weighted Nonnegative Embedding.Wu, Yan; Tamayo, Pablo; Zhang, KunCell systems.2018 12 26;30528274
Efficient labeling and imaging of protein-coding genes in living cells using CRISPR-Tag.Chen, Baohui; Zou, Wei; Xu, Haiyue; Liang, Ying; Huang, BoNature communications.2018 Nov 29;30498221
Acoustic Actuation of in situ Fabricated Artificial Cilia.Orbay, Sinem; Ozcelik, Adem; Bachman, Hunter; Huang, Tony JunJournal of micromechanics and microengineering : structures, devices, and systems.2018 Feb;30479458
Combinatorial processing of bacterial and host-derived innate immune stimuli at the single-cell level.Gutschow, Miriam V; Mason, John C; Lane, Keara M; Maayan, Inbal; Hughey, Jacob J; Bajar, Bryce T; Amatya, Debha N; Valle, Sean D; Covert, Markus WMolecular biology of the cell.2019 01 15;30462580
ClampFISH detects individual nucleic acid molecules using click chemistry-based amplification.Rouhanifard, Sara H; Mellis, Ian A; Dunagin, Margaret; Bayatpour, Sareh; Jiang, Connie L; Dardani, Ian; Symmons, Orsolya; Emert, Benjamin; Torre, Eduardo; Cote, Allison; Sullivan, Alessandra; Stamatoyannopoulos, John A; Raj, ArjunNature biotechnology.2018 Nov 12;30418432
Beyond Autoantibodies: Biologic Roles of Human Autoreactive B Cells in Rheumatoid Arthritis Revealed by RNA-Sequencing.Mahendra, Ankit; Yang, Xingyu; Abnouf, Shaza; Adolacion, Jay R T; Park, Daechan; Soomro, Sanam; Roszik, Jason; Coarfa, Cristian; Romain, Gabrielle; Wanzeck, Keith; Bridges Jr, S Louis; Aggarwal, Amita; Qiu, Peng; Agarwal, Sandeep K; Mohan, Chandra; Varadarajan, NavinArthritis & rheumatology (Hoboken, N.J.).2019 Apr;30407753
Shared and distinct transcriptomic cell types across neocortical areas.Tasic, Bosiljka; Yao, Zizhen; Graybuck, Lucas T; Smith, Kimberly A; Nguyen, Thuc Nghi; Bertagnolli, Darren; Goldy, Jeff; Garren, Emma; Economo, Michael N; Viswanathan, Sarada; Penn, Osnat; Bakken, Trygve; Menon, Vilas; Miller, Jeremy; Fong, Olivia; Hirokawa, Karla E; Lathia, Kanan; Rimorin, Christine; Tieu, Michael; Larsen, Rachael; Casper, Tamara; Barkan, Eliza; Kroll, Matthew; Parry, Sheana; Shapovalova, Nadiya V; Hirschstein, Daniel; Pendergraft, Julie; Sullivan, Heather A; Kim, Tae Kyung; Szafer, Aaron; Dee, Nick; Groblewski, Peter; Wickersham, Ian; Cetin, Ali; Harris, Julie A; Levi, Boaz P; Sunkin, Susan M; Madisen, Linda; Daigle, Tanya L; Looger, Loren; Bernard, Amy; Phillips, John; Lein, Ed; Hawrylycz, Michael; Svoboda, Karel; Jones, Allan R; Koch, Christof; Zeng, HongkuiNature.2018 11;30382198
Candidate-based screening via gene modulation in human neurons and astrocytes implicates FERMT2 in A? and TAU proteostasis.Sullivan, Sarah E; Liao, Meichen; Smith, Robert V; White, Charles; Lagomarsino, Valentina N; Xu, Jishu; Taga, Mariko; Bennett, David A; De Jager, Philip L; Young-Pearse, Tracy LHuman molecular genetics.2019 Mar 01;30371777
Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data.Zhu, Qian; Shah, Sheel; Dries, Ruben; Cai, Long; Yuan, Guo-ChengNature biotechnology.2018 Oct 29;30371680
Evolution of a Functional Taxonomy of Career Pathways for Biomedical Trainees.Mathur, Ambika; Brandt, P; Chalkley, R; Daniel, L; Labosky, P; Stayart, C; Meyers, FJournal of clinical and translational science.2018 Apr;30364657
Active Tuberculosis Is Characterized by Highly Differentiated Effector Memory Th1 Cells.Arrigucci, Riccardo; Lakehal, Karim; Vir, Pooja; Handler, Deborah; Davidow, Amy L; Herrera, Rosa; Estrada-Guzmán, Julia Dolores; Bushkin, Yuri; Tyagi, Sanjay; Lardizabal, Alfred A; Gennaro, Maria LauraFrontiers in immunology.2018;30283456
Recapitulation of molecular regulators of nuclear motion during cell migration.Sneider, Alexandra; Hah, Jungwon; Wirtz, Denis; Kim, Dong-HweeCell adhesion & migration.2019 12;30261154
Tumor cell density regulates matrix metalloproteinases for enhanced migration.Jayatilaka, Hasini; Umanzor, Fatima G; Shah, Vishwesh; Meirson, Tomer; Russo, Gabriella; Starich, Bartholomew; Tyle, Pranay; Lee, Jerry S H; Khatau, Shyam; Gil-Henn, Hava; Wirtz, DenisOncotarget.2018 Aug 24;30220965
Functional assessment of strains around a full-thickness and critical sized articular cartilage defect under compressive loading using MRI.Zevenbergen, L; Gsell, W; Chan, D D; Vander Sloten, J; Himmelreich, U; Neu, C P; Jonkers, IOsteoarthritis and cartilage.2018 12;30195045
Cartilage-on-cartilage contact: effect of compressive loading on tissue deformations and structural integrity of bovine articular cartilage.Zevenbergen, L; Gsell, W; Cai, L; Chan, D D; Famaey, N; Vander Sloten, J; Himmelreich, U; Neu, C P; Jonkers, IOsteoarthritis and cartilage.2018 12;30172835
Standing Surface Acoustic Wave (SSAW)-Based Fluorescence-Activated Cell Sorter.Ren, Liqiang; Yang, Shujie; Zhang, Peiran; Qu, Zhiguo; Mao, Zhangming; Huang, Po-Hsun; Chen, Yuchao; Wu, Mengxi; Wang, Lin; Li, Peng; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2018 10;30168662
Cell-Surface Marker Signature for Enrichment of Ventricular Cardiomyocytes Derived from Human Embryonic Stem Cells.Veevers, Jennifer; Farah, Elie N; Corselli, Mirko; Witty, Alec D; Palomares, Karina; Vidal, Jason G; Emre, Nil; Carson, Christian T; Ouyang, Kunfu; Liu, Canzhao; van Vliet, Patrick; Zhu, Maggie; Hegarty, Jeffrey M; Deacon, Dekker C; Grinstein, Jonathan D; Dirschinger, Ralf J; Frazer, Kelly A; Adler, Eric D; Knowlton, Kirk U; Chi, Neil C; Martin, Jody C; Chen, Ju; Evans, Sylvia MStem cell reports.2018 09 11;30122443
TIMING 2.0: high-throughput single-cell profiling of dynamic cell-cell interactions by time-lapse imaging microscopy in nanowell grids.Lu, Hengyang; Li, Jiabing; Martinez-Paniagua, Melisa A; Bandey, Irfan N; Amritkar, Amit; Singh, Harjeet; Mayerich, David; Varadarajan, Navin; Roysam, BadrinathBioinformatics (Oxford, England).2019 02 15;30084956
Digital acoustofluidics enables contactless and programmable liquid handling.Zhang, Steven Peiran; Lata, James; Chen, Chuyi; Mai, John; Guo, Feng; Tian, Zhenhua; Ren, Liqiang; Mao, Zhangming; Huang, Po-Hsun; Li, Peng; Yang, Shujie; Huang, Tony JunNature communications.2018 07 26;30050088
Insights into the Mutational Burden of Human Induced Pluripotent Stem Cells from an Integrative Multi-Omics Approach.D'Antonio, Matteo; Benaglio, Paola; Jakubosky, David; Greenwald, William W; Matsui, Hiroko; Donovan, Margaret K R; Li, He; Smith, Erin N; D'Antonio-Chronowska, Agnieszka; Frazer, Kelly ACell reports.2018 07 24;30044985
Transport and trapping of nanosheets via hydrodynamic forces and curvature-induced capillary quadrupolar interactions.Lee, Timothy J; Lewallen, Colby F; Bumbarger, Daniel J; Yunker, Peter J; Reid, R Clay; Forest, Craig RJournal of colloid and interface science.2018 Dec 01;30041112
Automated in vivo patch-clamp evaluation of extracellular multielectrode array spike recording capability.Allen, Brian D; Moore-Kochlacs, Caroline; Bernstein, Jacob G; Kinney, Justin P; Scholvin, Jorg; Seoane, Luís F; Chronopoulos, Chris; Lamantia, Charlie; Kodandaramaiah, Suhasa B; Tegmark, Max; Boyden, Edward SJournal of neurophysiology.2018 11 01;29995597
Circulating Tumor Cell Phenotyping via High-Throughput Acoustic Separation.Wu, Mengxi; Huang, Po-Hsun; Zhang, Rui; Mao, Zhangming; Chen, Chuyi; Kemeny, Gabor; Li, Peng; Lee, Adrian V; Gyanchandani, Rekha; Armstrong, Andrew J; Dao, Ming; Suresh, Subra; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2018 08;29968402
SAVER: gene expression recovery for single-cell RNA sequencing.Huang, Mo; Wang, Jingshu; Torre, Eduardo; Dueck, Hannah; Shaffer, Sydney; Bonasio, Roberto; Murray, John I; Raj, Arjun; Li, Mingyao; Zhang, Nancy RNature methods.2018 Jul;29941873
Exposure to multiple career pathways by biomedical doctoral students at a public research university.Mathur, Ambika; Chow, Christine S; Feig, Andrew L; Kenaga, Heidi; Moldenhauer, Judith A; Muthunayake, Nisansala S; Ouellett, Mathew L; Pence, Laura E; Straub, VictoriaPloS one.2018;29933412
A comparison of methods to assess cell mechanical properties.Wu, Pei-Hsun; Aroush, Dikla Raz-Ben; Asnacios, Atef; Chen, Wei-Chiang; Dokukin, Maxim E; Doss, Bryant L; Durand-Smet, Pauline; Ekpenyong, Andrew; Guck, Jochen; Guz, Nataliia V; Janmey, Paul A; Lee, Jerry S H; Moore, Nicole M; Ott, Albrecht; Poh, Yeh-Chuin; Ros, Robert; Sander, Mathias; Sokolov, Igor; Staunton, Jack R; Wang, Ning; Whyte, Graeme; Wirtz, DenisNature methods.2018 07;29915189
Dynamics and Spatial Genomics of the Nascent Transcriptome by Intron seqFISH.Shah, Sheel; Takei, Yodai; Zhou, Wen; Lubeck, Eric; Yun, Jina; Eng, Chee-Huat Linus; Koulena, Noushin; Cronin, Christopher; Karp, Christoph; Liaw, Eric J; Amin, Mina; Cai, LongCell.2018 May 31;29887381
Stabilization of Aliphatic Phosphines by Auxiliary Phosphine Sulfides Offers Zeptomolar Affinity and Unprecedented Selectivity for Probing Biological CuI.Morgan, M Thomas; Yang, Bo; Harankhedkar, Shefali; Nabatilan, Arielle; Bourassa, Daisy; McCallum, Adam M; Sun, Fangxu; Wu, Ronghu; Forest, Craig R; Fahrni, Christoph JAngewandte Chemie (International ed. in English).2018 Jun 08;29885022
Chromatin changes trigger laminin genes dysregulation in aging kidneys.Denisenko, Oleg; Mar, Daniel; Trawczynski, Matthew; Bomsztyk, KarolAging.2018 05 29;29846172
Multi-nucleated cells use ROS to induce breast cancer chemo-resistance in vitro and in vivo.Parekh, Aditya; Das, Subhayan; Parida, Sheetal; Das, Chandan Kanta; Dutta, Debabrata; Mallick, Sanjaya K; Wu, Pei-Hsun; Kumar, B N Prashanth; Bharti, Rashmi; Dey, Goutam; Banerjee, Kacoli; Rajput, Shashi; Bharadwaj, Deblina; Pal, Ipsita; Dey, Kaushik Kumar; Rajesh, Yetirajam; Jena, Bikash Chandra; Biswas, Angana; Banik, Payel; Pradhan, Anjan K; Das, Swadesh K; Das, Amit Kumar; Dhara, Santanu; Fisher, Paul B; Wirtz, Denis; Mills, Gordon B; Mandal, MahitoshOncogene.2018 08;29743594
Alveolar epithelial cell processing of nanoparticles activates autophagy and lysosomal exocytosis.Sipos, Arnold; Kim, Kwang-Jin; Chow, Robert H; Flodby, Per; Borok, Zea; Crandall, Edward DAmerican journal of physiology. Lung cellular and molecular physiology.2018 08 01;29722567
A sharp-edge-based acoustofluidic chemical signal generator.Huang, Po-Hsun; Chan, Chung Yu; Li, Peng; Wang, Yuqi; Nama, Nitesh; Bachman, Hunter; Huang, Tony JunLab on a chip.2018 05 15;29668002
Inhibition of ovarian tumor cell invasiveness by targeting SYK in the tyrosine kinase signaling pathway.Yu, Yu; Suryo Rahmanto, Yohan; Lee, Meng-Horng; Wu, Pei-Hsun; Phillip, Jude M; Huang, Chuan-Hsiang; Vitolo, Michele I; Gaillard, Stephanie; Martin, Stuart S; Wirtz, Denis; Shih, Ie-Ming; Wang, Tian-LiOncogene.2018 07;29643476
AceTree: a major update and case study in the long term maintenance of open-source scientific software.Katzman, Braden; Tang, Doris; Santella, Anthony; Bao, ZhirongBMC bioinformatics.2018 Apr 04;29618316
Single-Cell Mass Spectrometry Reveals Changes in Lipid and Metabolite Expression in RAW 264.7 Cells upon Lipopolysaccharide Stimulation.Yang, Bo; Patterson, Nathan Heath; Tsui, Tina; Caprioli, Richard M; Norris, Jeremy LJournal of the American Society for Mass Spectrometry.2018 Mar 13;29536413
Direct measurement of bipolar cell responses to electrical stimulation in wholemount mouse retina.Walston, Steven T; Chow, Robert H; Weiland, James DJournal of neural engineering.2018 08;29513646
A robotic multidimensional directed evolution approach applied to fluorescent voltage reporters.Piatkevich, Kiryl D; Jung, Erica E; Straub, Christoph; Linghu, Changyang; Park, Demian; Suk, Ho-Jun; Hochbaum, Daniel R; Goodwin, Daniel; Pnevmatikakis, Eftychios; Pak, Nikita; Kawashima, Takashi; Yang, Chao-Tsung; Rhoades, Jeffrey L; Shemesh, Or; Asano, Shoh; Yoon, Young-Gyu; Freifeld, Limor; Saulnier, Jessica L; Riegler, Clemens; Engert, Florian; Hughes, Thom; Drobizhev, Mikhail; Szabo, Balint; Ahrens, Misha B; Flavell, Steven W; Sabatini, Bernardo L; Boyden, Edward SNature chemical biology.2018 Apr;29483642
Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH.Torre, Eduardo; Dueck, Hannah; Shaffer, Sydney; Gospocic, Janko; Gupte, Rohit; Bonasio, Roberto; Kim, Junhyong; Murray, John; Raj, ArjunCell systems.2018 Feb 28;29454938
Molecular Time Sharing through Dynamic Pulsing in Single Cells.Park, Jin; Dies, Marta; Lin, Yihan; Hormoz, Sahand; Smith-Unna, Stephanie E; Quinodoz, Sofia; Hernández-Jiménez, María Jesús; Garcia-Ojalvo, Jordi; Locke, James C W; Elowitz, Michael BCell systems.2018 Feb 28;29454936
Single-nucleus analysis of accessible chromatin in developing mouse forebrain reveals cell-type-specific transcriptional regulation.Preissl, Sebastian; Fang, Rongxin; Huang, Hui; Zhao, Yuan; Raviram, Ramya; Gorkin, David U; Zhang, Yanxiao; Sos, Brandon C; Afzal, Veena; Dickel, Diane E; Kuan, Samantha; Visel, Axel; Pennacchio, Len A; Zhang, Kun; Ren, BingNature neuroscience.2018 Mar;29434377
Mechanical regulation of stem-cell differentiation by the stretch-activated Piezo channel.He, Li; Si, Guangwei; Huang, Jiuhong; Samuel, Aravinthan D T; Perrimon, NorbertNature.2018 03 01;29414942
Label-Free Imaging of Heme Dynamics in Living Organisms by Transient Absorption Microscopy.Chen, Andy Jing; Yuan, Xiaojing; Li, Junjie; Dong, Puting; Hamza, Iqbal; Cheng, Ji-XinAnalytical chemistry.2018 03 06;29401392
Acoustofluidic waveguides for localized control of acoustic wavefront in microfluidics.Bian, Yusheng; Guo, Feng; Yang, Shujie; Mao, Zhangming; Bachman, Hunter; Tang, Shi-Yang; Ren, Liqiang; Zhang, Bin; Gong, Jianying; Guo, Xiasheng; Huang, Tony JunMicrofluidics and nanofluidics.2017 Aug;29358901
Cell Membrane Tracking in Living Brain Tissue Using Differential Interference Contrast Microscopy.Lee, John; Kolb, Ilya; Forest, Craig R; Rozell, Christopher JIEEE transactions on image processing : a publication of the IEEE Signal Processing Society.2018 Apr;29346099
Survey of checkpoints along the pathway to diverse biomedical research faculty.Meyers, Lindsay C; Brown, Abigail M; Moneta-Koehler, Liane; Chalkley, RogerPloS one.2018;29338019
Multidimensional quantitative analysis of mRNA expression within intact vertebrate embryos.Trivedi, Vikas; Choi, Harry M T; Fraser, Scott E; Pierce, Niles ADevelopment (Cambridge, England).2018 01 08;29311262
PIVOT: platform for interactive analysis and visualization of transcriptomics data.Zhu, Qin; Fisher, Stephen A; Dueck, Hannah; Middleton, Sarah; Khaladkar, Mugdha; Kim, JunhyongBMC bioinformatics.2018 Jan 05;29304726
Acoustofluidic devices controlled by cell phones.Bachman, Hunter; Huang, Po-Hsun; Zhao, Shuaiguo; Yang, Shujie; Zhang, Peiran; Fu, Hai; Huang, Tony JunLab on a chip.2018 Jan 30;29302660
Multi-neuron intracellular recording in vivo via interacting autopatching robots.Kodandaramaiah, Suhasa B; Flores, Francisco J; Holst, Gregory L; Singer, Annabelle C; Han, Xue; Brown, Emery N; Boyden, Edward S; Forest, Craig ReLife.2018 01 03;29297466
Microprobe Capillary Electrophoresis Mass Spectrometry for Single-cell Metabolomics in Live Frog (Xenopus laevis) Embryos.Onjiko, Rosemary M; Portero, Erika P; Moody, Sally A; Nemes, PeterJournal of visualized experiments : JoVE.2017 Dec 22;29286491
Mammalian Cell Division in 3D Matrices via Quantitative Confocal Reflection Microscopy.He, Lijuan; Sneider, Alexandra; Chen, Weitong; Karl, Michelle; Prasath, Vishnu; Wu, Pei-Hsun; Mattson, Gunnar; Wirtz, DenisJournal of visualized experiments : JoVE.2017 11 29;29286363
Evidence for Long-Timescale Patterns of Synaptic Inputs in CA1 of Awake Behaving Mice.Kolb, Ilya; Talei Franzesi, Giovanni; Wang, Michael; Kodandaramaiah, Suhasa B; Forest, Craig R; Boyden, Edward S; Singer, Annabelle CThe Journal of neuroscience : the official journal of the Society for Neuroscience.2018 Feb 14;29279309
In Vivo Multiscale and Spatially-Dependent Biomechanics Reveals Differential Strain Transfer Hierarchy in Skeletal Muscle.Ghosh, Soham; Cimino, James G; Scott, Adrienne K; Damen, Frederick W; Phillips, Evan H; Veress, Alexander I; Neu, Corey P; Goergen, Craig JACS biomaterials science & engineering.2017 Nov 13;29276759
Nuclear lamin A/C harnesses the perinuclear apical actin cables to protect nuclear morphology.Kim, Jeong-Ki; Louhghalam, Arghavan; Lee, Geonhui; Schafer, Benjamin W; Wirtz, Denis; Kim, Dong-HweeNature communications.2017 Dec 14;29242553
Microdroplet fusion mass spectrometry: accelerated kinetics of acid-induced chlorophyll demetallation.Lee, Jae Kyoo; Nam, Hong Gil; Zare, Richard NQuarterly reviews of biophysics.2017 01;29233214
Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain.Lake, Blue B; Chen, Song; Sos, Brandon C; Fan, Jean; Kaeser, Gwendolyn E; Yung, Yun C; Duong, Thu E; Gao, Derek; Chun, Jerold; Kharchenko, Peter V; Zhang, KunNature biotechnology.2018 Jan;29227469
Pervasive within-Mitochondrion Single-Nucleotide Variant Heteroplasmy as Revealed by Single-Mitochondrion Sequencing.Morris, Jacqueline; Na, Young-Ji; Zhu, Hua; Lee, Jae-Hee; Giang, Hoa; Ulyanova, Alexandra V; Baltuch, Gordon H; Brem, Steven; Chen, H Isaac; Kung, David K; Lucas, Timothy H; O'Rourke, Donald M; Wolf, John A; Grady, M Sean; Sul, Jai-Yoon; Kim, Junhyong; EbCell reports.2017 Dec 05;29212019
Eph-ephrin signaling modulated by polymerization and condensation of receptors.Ojosnegros, Samuel; Cutrale, Francesco; Rodríguez, Daniel; Otterstrom, Jason J; Chiu, Chi Li; Hortigüela, Verónica; Tarantino, Carolina; Seriola, Anna; Mieruszynski, Stephen; Martínez, Elena; Lakadamyali, Melike; Raya, Angel; Fraser, Scott EProceedings of the National Academy of Sciences of the United States of America.2017 Dec 12;29192024
Identification of a neural crest stem cell niche by Spatial Genomic Analysis.Lignell, Antti; Kerosuo, Laura; Streichan, Sebastian J; Cai, Long; Bronner, Marianne ENature communications.2017 Nov 28;29184067
Functional MRI can detect changes in intratissue strains in a full thickness and critical sized ovine cartilage defect model.Chan, Deva D; Cai, Luyao; Butz, Kent D; Nauman, Eric A; Dickerson, Darryl A; Jonkers, Ilse; Neu, Corey PJournal of biomechanics.2018 01 03;29169631
An In Toto Approach to Dissecting Cellular Interactions in Complex Tissues.Shah, Pavak Kirit; Santella, Anthony; Jacobo, Adrian; Siletti, Kimberly; Hudspeth, A J; Bao, ZhirongDevelopmental cell.2017 Nov 20;29161596
Cell-type Dependent Alzheimer's Disease Phenotypes: Probing the Biology of Selective Neuronal Vulnerability.Muratore, Christina R; Zhou, Constance; Liao, Meichen; Fernandez, Marty A; Taylor, Walter M; Lagomarsino, Valentina N; Pearse 2nd, Richard V; Rice, Heather C; Negri, Joseph M; He, Amy; Srikanth, Priya; Callahan, Dana G; Shin, Taehwan; Zhou, Monica; Bennett, David A; Noggle, Scott; Love, J Christopher; Selkoe, Dennis J; Young-Pearse, Tracy LStem cell reports.2017 12 12;29153990
Unsupervised Trajectory Analysis of Single-Cell RNA-Seq and Imaging Data Reveals Alternative Tuft Cell Origins in the Gut.Herring, Charles A; Banerjee, Amrita; McKinley, Eliot T; Simmons, Alan J; Ping, Jie; Roland, Joseph T; Franklin, Jeffrey L; Liu, Qi; Gerdes, Michael J; Coffey, Robert J; Lau, Ken SCell systems.2017 Nov 07;29153838
Single-Cell Imaging Using Radioluminescence Microscopy Reveals Unexpected Binding Target for [18F]HFB.Kiru, Louise; Kim, Tae Jin; Shen, Bin; Chin, Frederick T; Pratx, GuillemMolecular imaging and biology.2018 06;29143174
Profiling the transcriptome with RNA SPOTs.Eng, Chee-Huat Linus; Shah, Sheel; Thomassie, Julian; Cai, LongNature methods.2017 Dec;29131163
Single-Cell Virology: On-Chip Investigation of Viral Infection Dynamics.Guo, Feng; Li, Sixing; Caglar, Mehmet Umut; Mao, Zhangming; Liu, Wu; Woodman, Andrew; Arnold, Jamie J; Wilke, Claus O; Huang, Tony Jun; Cameron, Craig ECell reports.2017 Nov 07;29117571
EB1 and cytoplasmic dynein mediate protrusion dynamics for efficient 3-dimensional cell migration.Jayatilaka, Hasini; Giri, Anjil; Karl, Michelle; Aifuwa, Ivie; Trenton, Nicholaus J; Phillip, Jude M; Khatau, Shyam; Wirtz, DenisFASEB journal : official publication of the Federation of American Societies for Experimental Biology.2018 03;29097501
Zika Virus Infects Intermediate Progenitor Cells and Post-mitotic Committed Neurons in Human Fetal Brain Tissues.Lin, Ming-Yi; Wang, Yi-Ling; Wu, Wan-Lin; Wolseley, Victoria; Tsai, Ming-Ting; Radic, Vladimir; Thornton, Matthew E; Grubbs, Brendan H; Chow, Robert H; Huang, I-ChuehScientific reports.2017 Nov 01;29093521
Efficient Prioritization of Multiple Causal eQTL Variants via Sparse Polygenic Modeling.Nariai, Naoki; Greenwald, William W; DeBoever, Christopher; Li, He; Frazer, Kelly AGenetics.2017 12;29074555
Metabolic Comparison of Dorsal versus Ventral Cells Directly in the Live 8-cell Frog Embryo by Microprobe Single-cell CE-ESI-MS.Onjiko, Rosemary M; Plotnick, David O; Moody, Sally A; Nemes, PeterAnalytical methods : advancing methods and applications.2017 Sep 14;29062391
Acoustic streaming: an arbitrary Lagrangian-Eulerian perspective.Nama, Nitesh; Huang, Tony Jun; Costanzo, FrancescoJournal of fluid mechanics.2017 Aug 25;29051631
Near-Infrared Fluorescent Proteins Engineered from Bacterial Phytochromes in Neuroimaging.Piatkevich, Kiryl D; Suk, Ho-Jun; Kodandaramaiah, Suhasa B; Yoshida, Fumiaki; DeGennaro, Ellen M; Drobizhev, Mikhail; Hughes, Thomas E; Desimone, Robert; Boyden, Edward S; Verkhusha, Vladislav VBiophysical journal.2017 Nov 21;29017728
Closed-Loop Real-Time Imaging Enables Fully Automated Cell-Targeted Patch-Clamp Neural Recording In Vivo.Suk, Ho-Jun; van Welie, Ingrid; Kodandaramaiah, Suhasa B; Allen, Brian; Forest, Craig R; Boyden, Edward SNeuron.2017 Sep 27;28957673
21st century neurobehavioral theories of decision making in addiction: Review and evaluation.Bickel, Warren K; Mellis, Alexandra M; Snider, Sarah E; Athamneh, Liqa N; Stein, Jeffrey S; Pope, Derek APharmacology, biochemistry, and behavior.2017 Sep 21;28942119
Group 1 Innate Lymphoid Cell Lineage Identity Is Determined by a cis-Regulatory Element Marked by a Long Non-coding RNA.Mowel, Walter K; McCright, Sam J; Kotzin, Jonathan J; Collet, Magalie A; Uyar, Asli; Chen, Xin; DeLaney, Alexandra; Spencer, Sean P; Virtue, Anthony T; Yang, EnJun; Villarino, Alejandro; Kurachi, Makoto; Dunagin, Margaret C; Pritchard, Gretchen Harms; Stein, Judith; Hughes, Cynthia; Fonseca-Pereira, Diogo; Veiga-Fernandes, Henrique; Raj, Arjun; Kambayashi, Taku; Brodsky, Igor E; O'Shea, John J; Wherry, E John; Goff, Loyal A; Rinn, John L; Williams, Adam; Flavell, Richard A; Henao-Mejia, JorgeImmunity.2017 Sep 19;28930659
Closed-Loop Real-Time Imaging Enables Fully Automated Cell-Targeted Patch-Clamp Neural Recording In Vivo.Suk, Ho-Jun; van Welie, Ingrid; Kodandaramaiah, Suhasa B; Allen, Brian; Forest, Craig R; Boyden, Edward SNeuron.2017 Aug 30;28858614
A magnetic micropore chip for rapid (Ko, Jina; Bhagwat, Neha; Yee, Stephanie S; Black, Taylor; Redlinger, Colleen; Romeo, Janae; O'Hara, Mark; Raj, Arjun; Carpenter, Erica L; Stanger, Ben Z; Issadore, DavidLab on a chip.2017 Sep 12;28809985
Using Longitudinal Data on Career Outcomes to Promote Improvements and Diversity in Graduate Education.Feig, Andrew L; Robinson, Leah; Yan, Song; Byrd, Mark; Mathur, AmbikaChange.2016;28804143
Acoustofluidic bacteria separation.Li, Sixing; Ma, Fen; Bachman, Hunter; Cameron, Craig E; Zeng, Xiangqun; Huang, Tony JunJournal of micromechanics and microengineering : structures, devices, and systems.2017 Jan 01;28798539
High-NA open-top selective-plane illumination microscopy for biological imaging.Mcgorty, Ryan; Xie, Dan; Huang, BoOptics express.2017 Jul 24;28789271
Single cell transcriptomics of noncoding RNAs and their cell-specificity.Gawronski, Katerina A B; Kim, JunhyongWiley interdisciplinary reviews. RNA.2017 Nov;28762653
Multifaceted role of BTLA in the control of CD8+ T cell fate after antigen encounter.Ritthipichai, Krit; Haymaker, Cara; Martinez-Paniagua, Melisa; Aschenbrenner, Andrew; Yi, Xiaohui; Zhang, Minying; Kale, Charuta; Hailemichael, Yared; Overwijk, Willem W; Vence, Luis; Roszik, Jason; Varadarajan, Navin; Nurieva, Roza; Radvanyi, Laszlo G; Hwu, Patrick; Bernatchez, ChantaleClinical cancer research : an official journal of the American Association for Cancer Research.2017 Jul 28;28754817
Patterned Disordered Cell Motion Ensures Vertebral Column Symmetry.Das, Dipjyoti; Chatti, Veena; Emonet, Thierry; Holley, Scott ADevelopmental cell.2017 07 24;28743003
A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA.Lake, Blue B; Codeluppi, Simone; Yung, Yun C; Gao, Derek; Chun, Jerold; Kharchenko, Peter V; Linnarsson, Sten; Zhang, KunScientific reports.2017 Jul 20;28729663
Nanoscale imaging of clinical specimens using pathology-optimized expansion microscopy.Zhao, Yongxin; Bucur, Octavian; Irshad, Humayun; Chen, Fei; Weins, Astrid; Stancu, Andreea L; Oh, Eun-Young; DiStasio, Marcello; Torous, Vanda; Glass, Benjamin; Stillman, Isaac E; Schnitt, Stuart J; Beck, Andrew H; Boyden, Edward SNature biotechnology.2017 Aug;28714966
Unmassked: Single-Cell Profiling of Immune Cell Populations in Tumors.Varadarajan, NavinMolecular therapy : the journal of the American Society of Gene Therapy.2017 Aug 02;28684257
Tissue specific requirements for WNT11 in developing outflow tract and dorsal mesenchymal protrusion.van Vliet, Patrick P; Lin, Lizhu; Boogerd, Cornelis J; Martin, James F; Andelfinger, Gregor; Grossfeld, Paul D; Evans, Sylvia MDevelopmental biology.2017 09 01;28669819
A novel flexible cuff-like microelectrode for dual purpose, acute and chronic electrical interfacing with the mouse cervical vagus nerve.Caravaca, A S; Tsaava, T; Goldman, L; Silverman, H; Riggott, G; Chavan, S S; Bouton, C; Tracey, K J; Desimone, R; Boyden, E S; Sohal, H S; Olofsson, P SJournal of neural engineering.2017 12;28628030
Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance.Shaffer, Sydney M; Dunagin, Margaret C; Torborg, Stefan R; Torre, Eduardo A; Emert, Benjamin; Krepler, Clemens; Beqiri, Marilda; Sproesser, Katrin; Brafford, Patricia A; Xiao, Min; Eggan, Elliott; Anastopoulos, Ioannis N; Vargas-Garcia, Cesar A; Singh, Abhyudai; Nathanson, Katherine L; Herlyn, Meenhard; Raj, ArjunNature.;28607484
Flow Cytometric Characterization of Antigen-Specific T Cells Based on RNA and Its Advantages in Detecting Infections and Immunological Disorders.Radford, Felix; Tyagi, Sanjay; Gennaro, Maria Laura; Pine, Richard; Bushkin, YuriCritical reviews in immunology.2016;28605344
Visualizing adenosine-to-inosine RNA editing in single mammalian cells.Mellis, Ian A; Gupte, Rohit; Raj, Arjun; Rouhanifard, Sara HNature methods.2017 Jun 12;28604724
IgG Fc domains that bind C1q but not effector Fc? receptors delineate the importance of complement-mediated effector functions.Lee, Chang-Han; Romain, Gabrielle; Yan, Wupeng; Watanabe, Makiko; Charab, Wissam; Todorova, Biliana; Lee, Jiwon; Triplett, Kendra; Donkor, Moses; Lungu, Oana I; Lux, Anja; Marshall, Nicholas; Lindorfer, Margaret A; Goff, Odile Richard-Le; Balbino, Bianca; Kang, Tae Hyun; Tanno, Hidetaka; Delidakis, George; Alford, Corrine; Taylor, Ronald P; Nimmerjahn, Falk; Varadarajan, Navin; Bruhns, Pierre; Zhang, Yan Jessie; Georgiou, GeorgeNature immunology.2017 Aug;28604720
Single image super-resolution via an iterative reproducing kernel Hilbert space method.Deng, Liang-Jian; Guo, Weihong; Huang, Ting-ZhuIEEE transactions on circuits and systems for video technology : a publication of the Circuits and Systems Society.2016 Nov;28603404
Optimized multiplex immunofluorescence single-cell analysis reveals tuft cell heterogeneity.McKinley, Eliot T; Sui, Yunxia; Al-Kofahi, Yousef; Millis, Bryan A; Tyska, Matthew J; Roland, Joseph T; Santamaria-Pang, Alberto; Ohland, Christina L; Jobin, Christian; Franklin, Jeffrey L; Lau, Ken S; Gerdes, Michael J; Coffey, Robert JJCI insight.2017 Jun 02;28570279
A robot for high yield electrophysiology and morphology of single neurons in vivo.Li, Lu; Ouellette, Benjamin; Stoy, William A; Garren, Emma J; Daigle, Tanya L; Forest, Craig R; Koch, Christof; Zeng, HongkuiNature communications.2017 Jun 01;28569837
Mesoscale-duration activated states gate spiking in response to fast rises in membrane voltage in the awake brain.Singer, Annabelle C; Talei Franzesi, Giovanni; Kodandaramaiah, Suhasa B; Flores, Francisco J; Cohen, Jeremy D; Lee, Albert K; Börgers, Christoph; Forest, Craig R; Kopell, Nancy J; Boyden, Edward SJournal of neurophysiology.2017 May 31;28566460
Synergistic IL-6 and IL-8 paracrine signalling pathway infers a strategy to inhibit tumour cell migration.Jayatilaka, Hasini; Tyle, Pranay; Chen, Jonathan J; Kwak, Minsuk; Ju, Julia; Kim, Hyun Ji; Lee, Jerry S H; Wu, Pei-Hsun; Gilkes, Daniele M; Fan, Rong; Wirtz, DenisNature communications.2017 May 26;28548090
The ''new normal'': Adapting doctoral trainee career preparation for broad career paths in science.St Clair, Rebekah; Hutto, Tamara; MacBeth, Cora; Newstetter, Wendy; McCarty, Nael A; Melkers, JuliaPloS one.2017;28542304
Assessing the causal relationship between obesity and venous thromboembolism through a Mendelian Randomization study.Lindström, Sara; Germain, Marine; Crous-Bou, Marta; Smith, Erin N; Morange, Pierre-Emmanuel; van Hylckama Vlieg, Astrid; de Haan, Hugoline G; Chasman, Daniel; Ridker, Paul; Brody, Jennifer; de Andrade, Mariza; Heit, John A; Tang, Weihong; DeVivo, Immaculata; Grodstein, Francine; Smith, Nicholas L; Tregouet, David; Kabrhel, Christopher; INVENT ConsortiumHuman genetics.2017 Jul;28528403
FISH-Flow, a protocol for the concurrent detection of mRNA and protein in single cells using fluorescence in situ hybridization and flow cytometry.Arrigucci, Riccardo; Bushkin, Yuri; Radford, Felix; Lakehal, Karim; Vir, Pooja; Pine, Richard; Martin, December; Sugarman, Jeffrey; Zhao, Yanlin; Yap, George S; Lardizabal, Alfred A; Tyagi, Sanjay; Gennaro, Maria LauraNature protocols.2017 Jun;28518171
A Chimeric Egfr Protein Reporter Mouse Reveals Egfr Localization and Trafficking In Vivo.Yang, Yu-Ping; Ma, Haiting; Starchenko, Alina; Huh, Won Jae; Li, Wei; Hickman, F Edward; Zhang, Qin; Franklin, Jeffrey L; Mortlock, Douglas P; Fuhrmann, Sabine; Carter, Bruce D; Ihrie, Rebecca A; Coffey, Robert JCell reports.2017 May 09;28494873
Development of an optimized synthetic Notch receptor as an in vivo cell-cell contact sensor.He, Li; Huang, Jiuhong; Perrimon, NorbertProceedings of the National Academy of Sciences of the United States of America.2017 05 23;28490499
Assessment of Single Cell RNA-Seq Normalization Methods.Ding, Bo; Zheng, Lina; Wang, WeiG3 (Bethesda, Md.).2017 Jul 05;28468817
In Situ Microprobe Single-Cell Capillary Electrophoresis Mass Spectrometry: Metabolic Reorganization in Single Differentiating Cells in the Live Vertebrate (Xenopus laevis) Embryo.Onjiko, Rosemary M; Portero, Erika P; Moody, Sally A; Nemes, PeterAnalytical chemistry.2017 Jul 05;28434226
Iterative expansion microscopy.Chang, Jae-Byum; Chen, Fei; Yoon, Young-Gyu; Jung, Erica E; Babcock, Hazen; Kang, Jeong Seuk; Asano, Shoh; Suk, Ho-Jun; Pak, Nikita; Tillberg, Paul W; Wassie, Asmamaw T; Cai, Dawen; Boyden, Edward SNature methods.2017 Jun;28417997
High-Throughput and Cost-Effective Characterization of Induced Pluripotent Stem Cells.D'Antonio, Matteo; Woodruff, Grace; Nathanson, Jason L; D'Antonio-Chronowska, Agnieszka; Arias, Angelo; Matsui, Hiroko; Williams, Roy; Herrera, Cheryl; Reyna, Sol M; Yeo, Gene W; Goldstein, Lawrence S B; Panopoulos, Athanasia D; Frazer, Kelly AStem cell reports.2017 Apr 11;28410643
iPSCORE: A Resource of 222 iPSC Lines Enabling Functional Characterization of Genetic Variation across a Variety of Cell Types.Panopoulos, Athanasia D; D'Antonio, Matteo; Benaglio, Paola; Williams, Roy; Hashem, Sherin I; Schuldt, Bernhard M; DeBoever, Christopher; Arias, Angelo D; Garcia, Melvin; Nelson, Bradley C; Harismendy, Olivier; Jakubosky, David A; Donovan, Margaret K R; Greenwald, William W; Farnam, KathyJean; Cook, Megan; Borja, Victor; Miller, Carl A; Grinstein, Jonathan D; Drees, Frauke; Okubo, Jonathan; Diffenderfer, Kenneth E; Hishida, Yuriko; Modesto, Veronica; Dargitz, Carl T; Feiring, Rachel; Zhao, Chang; Aguirre, Aitor; McGarry, Thomas J; Matsui, Hiroko; Li, He; Reyna, Joaquin; Rao, Fangwen; O'Connor, Daniel T; Yeo, Gene W; Evans, Sylvia M; Chi, Neil C; Jepsen, Kristen; Nariai, Naoki; Müller, Franz-Josef; Goldstein, Lawrence S B; Izpisua Belmonte, Juan Carlos; Adler, Eric; Loring, Jeanne F; Berggren, W Travis; D'Antonio-Chronowska, Agnieszka; Smith, Erin N; Frazer, Kelly AStem cell reports.2017 Apr 11;28410642
High-Throughput and Cost-Effective Characterization of Induced Pluripotent Stem Cells.D'Antonio, Matteo; Woodruff, Grace; Nathanson, Jason L; D'Antonio-Chronowska, Agnieszka; Arias, Angelo; Matsui, Hiroko; Williams, Roy; Herrera, Cheryl; Reyna, Sol M; Yeo, Gene W; Goldstein, Lawrence S B; Panopoulos, Athanasia D; Frazer, Kelly AStem cell reports.2017 Apr 04;28392217
iPSCORE: A Resource of 222 iPSC Lines Enabling Functional Characterization of Genetic Variation across a Variety of Cell Types.Panopoulos, Athanasia D; D'Antonio, Matteo; Benaglio, Paola; Williams, Roy; Hashem, Sherin I; Schuldt, Bernhard M; DeBoever, Christopher; Arias, Angelo D; Garcia, Melvin; Nelson, Bradley C; Harismendy, Olivier; Jakubosky, David A; Donovan, Margaret K R; Greenwald, William W; Farnam, KathyJean; Cook, Megan; Borja, Victor; Miller, Carl A; Grinstein, Jonathan D; Drees, Frauke; Okubo, Jonathan; Diffenderfer, Kenneth E; Hishida, Yuriko; Modesto, Veronica; Dargitz, Carl T; Feiring, Rachel; Zhao, Chang; Aguirre, Aitor; McGarry, Thomas J; Matsui, Hiroko; Li, He; Reyna, Joaquin; Rao, Fangwen; O'Connor, Daniel T; Yeo, Gene W; Evans, Sylvia M; Chi, Neil C; Jepsen, Kristen; Nariai, Naoki; Müller, Franz-Josef; Goldstein, Lawrence S B; Izpisua Belmonte, Juan Carlos; Adler, Eric; Loring, Jeanne F; Berggren, W Travis; D'Antonio-Chronowska, Agnieszka; Smith, Erin N; Frazer, Kelly AStem cell reports.2017 Apr 03;28392216
Pgltools: a genomic arithmetic tool suite for manipulation of Hi-C peak and other chromatin interaction data.Greenwald, William W; Li, He; Smith, Erin N; Benaglio, Paola; Nariai, Naoki; Frazer, Kelly ABMC bioinformatics.2017 Apr 07;28388874
Large-Scale Profiling Reveals the Influence of Genetic Variation on Gene Expression in Human Induced Pluripotent Stem Cells.DeBoever, Christopher; Li, He; Jakubosky, David; Benaglio, Paola; Reyna, Joaquin; Olson, Katrina M; Huang, Hui; Biggs, William; Sandoval, Efren; D'Antonio, Matteo; Jepsen, Kristen; Matsui, Hiroko; Arias, Angelo; Ren, Bing; Nariai, Naoki; Smith, Erin N; D'Antonio-Chronowska, Agnieszka; Farley, Emma K; Frazer, Kelly ACell stem cell.2017 Apr 06;28388430
Aberrant DNA Methylation in Human iPSCs Associates with MYC-Binding Motifs in a Clone-Specific Manner Independent of Genetics.Panopoulos, Athanasia D; Smith, Erin N; Arias, Angelo D; Shepard, Peter J; Hishida, Yuriko; Modesto, Veronica; Diffenderfer, Kenneth E; Conner, Clay; Biggs, William; Sandoval, Efren; D'Antonio-Chronowska, Agnieszka; Berggren, W Travis; Izpisua Belmonte, Juan Carlos; Frazer, Kelly ACell stem cell.2017 Apr 06;28388429
Tracking Multiple Genomic Elements Using Correlative CRISPR Imaging and Sequential DNA FISH.Guan, Juan; Liu, Harrison; Shi, Xiaoyu; Feng, Siyu; Huang, BoBiophysical journal.2017 Mar 28;28355536
Diagnosis of prostate cancer by desorption electrospray ionization mass spectrometric imaging of small metabolites and lipids.Banerjee, Shibdas; Zare, Richard N; Tibshirani, Robert J; Kunder, Christian A; Nolley, Rosalie; Fan, Richard; Brooks, James D; Sonn, Geoffrey AProceedings of the National Academy of Sciences of the United States of America.2017 Mar 28;28292895
3D Clumped Cell Segmentation Using Curvature Based Seeded Watershed.Atta-Fosu, Thomas; Guo, Weihong; Jeter, Dana; Mizutani, Claudia M; Stopczynski, Nathan; Sousa-Neves, RuiJournal of imaging.2016 Dec;28280723
Seq-Well: portable, low-cost RNA sequencing of single cells at high throughput.Gierahn, Todd M; Wadsworth 2nd, Marc H; Hughes, Travis K; Bryson, Bryan D; Butler, Andrew; Satija, Rahul; Fortune, Sarah; Love, J Christopher; Shalek, Alex KNature methods.2017 Apr;28192419
Mechanisms of Cardiomyocyte Proliferation and Differentiation in Development and Regeneration.Yester, Jessie Wettig; Kühn, BernhardCurrent cardiology reports.2017 Feb;28185170
Tumor evolution: Linear, branching, neutral or punctuated?Davis, Alexander; Gao, Ruli; Navin, NicholasBiochimica et biophysica acta.2017 04;28110020
Primary Cell Culture of Live Neurosurgically Resected Aged Adult Human Brain Cells and Single Cell Transcriptomics.Spaethling, Jennifer M; Na, Young-Ji; Lee, Jaehee; Ulyanova, Alexandra V; Baltuch, Gordon H; Bell, Thomas J; Brem, Steven; Chen, H Isaac; Dueck, Hannah; Fisher, Stephen A; Garcia, Marcela P; Khaladkar, Mugdha; Kung, David K; Lucas Jr, Timothy H; O'Rourke, Donald M; Stefanik, Derek; Wang, Jinhui; Wolf, John A; Bartfai, Tamas; Grady, M Sean; Sul, Jai-Yoon; Kim, Junhyong; Eberwine, James HCell reports.2017 Jan 17;28099855
New-generation mass spectrometry expands the toolbox of cell and developmental biology.Lombard-Banek, Camille; Portero, Erika P; Onjiko, Rosemary M; Nemes, PeterGenesis (New York, N.Y. : 2000).2017 Jan;28095647
Hybrid Dielectric-loaded Nanoridge Plasmonic Waveguide for Low-Loss Light Transmission at the Subwavelength Scale.Zhang, Bin; Bian, Yusheng; Ren, Liqiang; Guo, Feng; Tang, Shi-Yang; Mao, Zhangming; Liu, Xiaomin; Sun, Jinju; Gong, Jianying; Guo, Xiasheng; Huang, Tony JunScientific reports.2017 Jan 16;28091583
Hyperspectral phasor analysis enables multiplexed 5D in vivo imaging.Cutrale, Francesco; Trivedi, Vikas; Trinh, Le A; Chiu, Chi-Li; Choi, John M; Artiga, Marcela S; Fraser, Scott ENature methods.2017 02;28068315
Acoustic actuation of bioinspired microswimmers.Kaynak, Murat; Ozcelik, Adem; Nourhani, Amir; Lammert, Paul E; Crespi, Vincent H; Huang, Tony JunLab on a chip.2017 Jan 31;27991641
Gamma frequency entrainment attenuates amyloid load and modifies microglia.Iaccarino, Hannah F; Singer, Annabelle C; Martorell, Anthony J; Rudenko, Andrii; Gao, Fan; Gillingham, Tyler Z; Mathys, Hansruedi; Seo, Jinsoo; Kritskiy, Oleg; Abdurrob, Fatema; Adaikkan, Chinnakkaruppan; Canter, Rebecca G; Rueda, Richard; Brown, Emery N; Boyden, Edward S; Tsai, Li-HueiNature.2016 12 07;27929004
Inferring Cell-State Transition Dynamics from Lineage Trees and Endpoint Single-Cell Measurements.Hormoz, Sahand; Singer, Zakary S; Linton, James M; Antebi, Yaron E; Shraiman, Boris I; Elowitz, Michael BCell systems.;27883889
Assessing characteristics of RNA amplification methods for single cell RNA sequencing.Dueck, Hannah R; Ai, Rizi; Camarena, Adrian; Ding, Bo; Dominguez, Reymundo; Evgrafov, Oleg V; Fan, Jian-Bing; Fisher, Stephen A; Herstein, Jennifer S; Kim, Tae Kyung; Kim, Jae Mun Hugo; Lin, Ming-Yi; Liu, Rui; Mack, William J; McGroty, Sean; Nguyen, Joseph D; Salathia, Neeraj; Shallcross, Jamie; Souaiaia, Tade; Spaethling, Jennifer M; Walker, Christopher P; Wang, Jinhui; Wang, Kai; Wang, Wei; Wildberg, Andre; Zheng, Lina; Chow, Robert H; Eberwine, James; Knowles, James A; Zhang, Kun; Kim, JunhyongBMC genomics.2016 Nov 24;27881084
Synthetic recording and in situ readout of lineage information in single cells.Frieda, Kirsten L; Linton, James M; Hormoz, Sahand; Choi, Joonhyuk; Chow, Ke-Huan K; Singer, Zakary S; Budde, Mark W; Elowitz, Michael B; Cai, LongNature.2017 01 05;27869821
In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus.Shah, Sheel; Lubeck, Eric; Zhou, Wen; Cai, LongNeuron.2016 Oct 19;27764670
Enhancing Graduate and Postdoctoral Education To Create a Sustainable Biomedical Workforce.Fuhrmann, Cynthia NHuman gene therapy.2016 Nov;27762630
Acoustofluidic coating of particles and cells.Ayan, Bugra; Ozcelik, Adem; Bachman, Hunter; Tang, Shi-Yang; Xie, Yuliang; Wu, Mengxi; Li, Peng; Huang, Tony JunLab on a chip.2016 Nov 01;27754503
Impaired coordination between signaling pathways is revealed in human colorectal cancer using single-cell mass cytometry of archival tissue blocks.Simmons, Alan J; Scurrah, Cherié R; McKinley, Eliot T; Herring, Charles A; Irish, Jonathan M; Washington, M Kay; Coffey, Robert J; Lau, Ken SScience signaling.2016 Oct 11;27729552
Cleaning patch-clamp pipettes for immediate reuse.Kolb, I; Stoy, W A; Rousseau, E B; Moody, O A; Jenkins, A; Forest, C RScientific reports.2016 Oct 11;27725751
Optical method for automated measurement of glass micropipette tip geometry.Stockslager, Max A; Capocasale, Christopher M; Holst, Gregory L; Simon, Michael D; Li, Yuanda; McGruder, Dustin J; Rousseau, Erin B; Stoy, William A; Sulchek, Todd; Forest, Craig RPrecision engineering.2016 Oct;27672230
Using Stage- and Slit-Scanning to Improve Contrast and Optical Sectioning in Dual-View Inverted Light Sheet Microscopy (diSPIM).Kumar, Abhishek; Christensen, Ryan; Guo, Min; Chandris, Panos; Duncan, William; Wu, Yicong; Santella, Anthony; Moyle, Mark; Winter, Peter W; Colón-Ramos, Daniel; Bao, Zhirong; Shroff, HariThe Biological bulletin.2016 Aug;27638693
Surface Acoustic Waves Grant Superior Spatial Control of Cells Embedded in Hydrogel Fibers.Lata, James P; Guo, Feng; Guo, Jinshan; Huang, Po-Hsun; Yang, Jian; Huang, Tony JunAdvanced materials (Deerfield Beach, Fla.).2016 Oct;27571239
Noncommutative Biology: Sequential Regulation of Complex Networks.Letsou, William; Cai, LongPLoS computational biology.2016 08;27560383
Punctuated copy number evolution and clonal stasis in triple-negative breast cancer.Gao, Ruli; Davis, Alexander; McDonald, Thomas O; Sei, Emi; Shi, Xiuqing; Wang, Yong; Tsai, Pei-Ching; Casasent, Anna; Waters, Jill; Zhang, Hong; Meric-Bernstam, Funda; Michor, Franziska; Navin, Nicholas ENature genetics.2016 Oct;27526321
The long non-coding RNA Morrbid regulates Bim and short-lived myeloid cell lifespan.Kotzin, Jonathan J; Spencer, Sean P; McCright, Sam J; Kumar, Dinesh B Uthaya; Collet, Magalie A; Mowel, Walter K; Elliott, Ellen N; Uyar, Asli; Makiya, Michelle A; Dunagin, Margaret C; Harman, Christian C D; Virtue, Anthony T; Zhu, Stella; Bailis, Will; Stein, Judith; Hughes, Cynthia; Raj, Arjun; Wherry, E John; Goff, Loyal A; Klion, Amy D; Rinn, John L; Williams, Adam; Flavell, Richard A; Henao-Mejia, JorgeNature.2016 Sep 08;27525555
Acoustofluidic Rotational Manipulation of Cells and Organisms Using Oscillating Solid Structures.Ozcelik, Adem; Nama, Nitesh; Huang, Po-Hsun; Kaynak, Murat; McReynolds, Melanie R; Hanna-Rose, Wendy; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2016 Oct;27515787
Observing Mitotic Division and Dynamics in a Live Zebrafish Embryo.Percival, Stefanie M; Parant, John MJournal of visualized experiments : JoVE.2016 07 15;27501381
Analyzing tumor heterogeneity and driver genes in single myeloid leukemia cells with SBCapSeq.Mann, Karen M; Newberg, Justin Y; Black, Michael A; Jones, Devin J; Amaya-Manzanares, Felipe; Guzman-Rojas, Liliana; Kodama, Takahiro; Ward, Jerrold M; Rust, Alistair G; van der Weyden, Louise; Yew, Christopher Chin Kuan; Waters, Jill L; Leung, Marco L; Rogers, Keith; Rogers, Susan M; McNoe, Leslie A; Selvanesan, Luxmanan; Navin, Nicholas; Jenkins, Nancy A; Copeland, Neal G; Mann, Michael BNature biotechnology.2016 Sep;27479497
Acoustofluidic actuation of in situ fabricated microrotors.Kaynak, Murat; Ozcelik, Adem; Nama, Nitesh; Nourhani, Amir; Lammert, Paul E; Crespi, Vincent H; Huang, Tony JunLab on a chip.2016 Sep 21;27466140
KIF1A/UNC-104 Transports ATG-9 to Regulate Neurodevelopment and Autophagy at Synapses.Stavoe, Andrea K H; Hill, Sarah E; Hall, David H; Colón-Ramos, Daniel ADevelopmental cell.2016 Jul 25;27396362
Integration of autopatching with automated pipette and cell detection in vitro.Wu, Qiuyu; Kolb, Ilya; Callahan, Brendan M; Su, Zhaolun; Stoy, William; Kodandaramaiah, Suhasa B; Neve, Rachael L; Zeng, Hongkui; Boyden, Ed S; Forest, Craig R; Chubykin, Alexander AJournal of neurophysiology.2016 Jul 6;27385800
Probe for the measurement of cell surface pH in vivo and ex vivo.Anderson, Michael; Moshnikova, Anna; Engelman, Donald M; Reshetnyak, Yana K; Andreev, Oleg AProceedings of the National Academy of Sciences of the United States of America.2016 Jul 19;27382181
Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies.Tillberg, Paul W; Chen, Fei; Piatkevich, Kiryl D; Zhao, Yongxin; Yu, Chih-Chieh Jay; English, Brian P; Gao, Linyi; Martorell, Anthony; Suk, Ho-Jun; Yoshida, Fumiaki; DeGennaro, Ellen M; Roossien, Douglas H; Gong, Guanyu; Seneviratne, Uthpala; Tannenbaum, Nature biotechnology.2016 Jul 4;27376584
Single-molecule RNA detection at depth by hybridization chain reaction and tissue hydrogel embedding and clearing.Shah, Sheel; Lubeck, Eric; Schwarzkopf, Maayan; He, Ting-Fang; Greenbaum, Alon; Sohn, Chang Ho; Lignell, Antti; Choi, Harry M T; Gradinaru, Viviana; Pierce, Niles A; Cai, LongDevelopment (Cambridge, England).2016 Aug 01;27342713
A hyperactive transcriptional state marks genome reactivation at the mitosis-G1 transition.Hsiung, Chris C-S; Bartman, Caroline R; Huang, Peng; Ginart, Paul; Stonestrom, Aaron J; Keller, Cheryl A; Face, Carolyne; Jahn, Kristen S; Evans, Perry; Sankaranarayanan, Laavanya; Giardine, Belinda; Hardison, Ross C; Raj, Arjun; Blobel, Gerd AGenes & development.2016 Jun 15;27340175
Neuronal subtypes and diversity revealed by single-nucleus RNA sequencing of the human brain.Lake, Blue B; Ai, Rizi; Kaeser, Gwendolyn E; Salathia, Neeraj S; Yung, Yun C; Liu, Rui; Wildberg, Andre; Gao, Derek; Fung, Ho-Lim; Chen, Song; Vijayaraghavan, Raakhee; Wong, Julian; Chen, Allison; Sheng, Xiaoyan; Kaper, Fiona; Shen, Richard; Ronaghi, Mostafa; Fan, Jian-Bing; Wang, Wei; Chun, Jerold; Zhang, KunScience (New York, N.Y.).2016 Jun 24;27339989
Rapid formation of size-controllable multicellular spheroids via 3D acoustic tweezers.Chen, Kejie; Wu, Mengxi; Guo, Feng; Li, Peng; Chan, Chung Yu; Mao, Zhangming; Li, Sixing; Ren, Liqiang; Zhang, Rui; Huang, Tony JunLab on a chip.2016 Jul 5;27327102
On-Chip Production of Size-Controllable Liquid Metal Microdroplets Using Acoustic Waves.Tang, Shi-Yang; Ayan, Bugra; Nama, Nitesh; Bian, Yusheng; Lata, James P; Guo, Xiasheng; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2016 Jul;27309129
In Situ and In Vivo Molecular Analysis by Coherent Raman Scattering Microscopy.Liao, Chien-Sheng; Cheng, Ji-XinAnnual review of analytical chemistry (Palo Alto, Calif.).2016 Jun 12;27306307
Constitutive Lck Activity Drives Sensitivity Differences between CD8+ Memory T Cell Subsets.Moogk, Duane; Zhong, Shi; Yu, Zhiya; Liadi, Ivan; Rittase, William; Fang, Victoria; Dougherty, Janna; Perez-Garcia, Arianne; Osman, Iman; Zhu, Cheng; Varadarajan, Navin; Restifo, Nicholas P; Frey, Alan B; Krogsgaard, MichelleJournal of immunology (Baltimore, Md. : 1950).2016 Jul 15;27271569
Dense transcript profiling in single cells by image correlation decoding.Coskun, Ahmet F; Cai, LongNature methods.2016 Aug;27271198
What's Luck Got to Do with It: Single Cells, Multiple Fates, and Biological Nondeterminism.Symmons, Orsolya; Raj, ArjunMolecular cell.2016 Jun 2;27259209
A shared neural ensemble links distinct contextual memories encoded close in time.Cai, Denise J; Aharoni, Daniel; Shuman, Tristan; Shobe, Justin; Biane, Jeremy; Song, Weilin; Wei, Brandon; Veshkini, Michael; La-Vu, Mimi; Lou, Jerry; Flores, Sergio E; Kim, Isaac; Sano, Yoshitake; Zhou, Miou; Baumgaertel, Karsten; Lavi, Ayal; Kamata, Masakazu; Tuszynski, Mark; Mayford, Mark; Golshani, Peyman; Silva, Alcino JNature.2016 06 02;27251287
Monitoring Enzymatic Reactions in Real Time Using Venturi Easy Ambient Sonic-Spray Ionization Mass Spectrometry.Jansson, Erik T; Dulay, Maria T; Zare, Richard NAnalytical chemistry.2016 Jun 21;27249533
Multicolor Fluorescence Detection for Droplet Microfluidics Using Optical Fibers.Cole, Russell H; Gartner, Zev J; Abate, Adam RJournal of visualized experiments : JoVE.2016 May 05;27214249
Evaluation of a BGO-Based PET System for Single-Cell Tracking Performance by Simulation and Phantom Studies.Ouyang, Yu; Kim, Tae Jin; Pratx, GuillemMolecular imaging.2016;27175009
Approaches to Inactivate Genes in Zebrafish.Parant, John M; Yeh, Jing-Ruey JoannaAdvances in experimental medicine and biology.2016;27165349
Investigation of micromixing by acoustically oscillated sharp-edges.Nama, Nitesh; Huang, Po-Hsun; Huang, Tony Jun; Costanzo, FrancescoBiomicrofluidics.2016 Mar;27158292
Imaging Specific Genomic DNA in Living Cells.Chen, Baohui; Guan, Juan; Huang, BoAnnual review of biophysics.2016 Jul 5;27145877
High-Resolution Live-Cell Imaging and Analysis by Laser Desorption/Ionization Droplet Delivery Mass Spectrometry.Lee, Jae Kyoo; Jansson, Erik T; Nam, Hong Gil; Zare, Richard NAnalytical chemistry.2016 May 17;27110027
MMSET/WHSC1 enhances DNA damage repair leading to an increase in resistance to chemotherapeutic agents.Shah, M Y; Martinez-Garcia, E; Phillip, J M; Chambliss, A B; Popovic, R; Ezponda, T; Small, E C; Will, C; Phillip, M P; Neri, P; Bahlis, N J; Wirtz, D; Licht, J DOncogene.2016 11 10;27109101
Monovar: single-nucleotide variant detection in single cells.Zafar, Hamim; Wang, Yong; Nakhleh, Luay; Navin, Nicholas; Chen, KenNature methods.;27088313
Enhancer Regulation of Transcriptional Bursting Parameters Revealed by Forced Chromatin Looping.Bartman CR, Hsu SC, Hsiung CC, Raj A, Blobel GA.Molecular Cell2016 April 5V:62 P:1-1127067601
Generation of Catalytic Antibodies Is an Intrinsic Property of an Individual's Immune System: A Study on a Large Cohort of Renal Transplant Patients.Mahendra, Ankit; Peyron, Ivan; Thaunat, Olivier; Dollinger, Cécile; Gilardin, Laurent; Sharma, Meenu; Wootla, Bharath; Rao, Desirazu N; Padiolleau-Lefevre, Séverine; Boquet, Didier; More, Abhijit; Varadarajan, Navin; Kaveri, Srini V; Legendre, Christophe; Lacroix-Desmazes, SébastienJournal of immunology (Baltimore, Md. : 1950).2016 May 15;27067006
Regulation of ribosomal RNA expression across the lifespan is fine-tuned by maternal diet before implantation.Denisenko, Oleg; Lucas, Emma S; Sun, Congshan; Watkins, Adam J; Mar, Daniel; Bomsztyk, Karol; Fleming, Tom PBiochimica et biophysica acta.2016 Jul;27060415
Rotational manipulation of single cells and organisms using acoustic waves.Ahmed, Daniel; Ozcelik, Adem; Bojanala, Nagagireesh; Nama, Nitesh; Upadhyay, Awani; Chen, Yuchao; Hanna-Rose, Wendy; Huang, Tony JunNature communications.2016;27004764
Single-cell mass spectrometry with multi-solvent extraction identifies metabolic differences between left and right blastomeres in the 8-cell frog (Xenopus) embryo.Onjiko, Rosemary M; Morris, Sydney E; Moody, Sally A; Nemes, PeterThe Analyst.2016 Jun 21;27004603
Versatile protein tagging in cells with split fluorescent protein.Kamiyama, Daichi; Sekine, Sayaka; Barsi-Rhyne, Benjamin; Hu, Jeffrey; Chen, Baohui; Gilbert, Luke A; Ishikawa, Hiroaki; Leonetti, Manuel D; Marshall, Wallace F; Weissman, Jonathan S; Huang, BoNature communications.2016;26988139
High resolution laser mass spectrometry bioimaging.Murray, Kermit K; Seneviratne, Chinthaka A; Ghorai, SumanMethods (San Diego, Calif.).2016 Jul 15;26972785
Denoising Stimulated Raman Spectroscopic Images by Total Variation Minimization.Liao, Chien-Sheng; Choi, Joon Hee; Zhang, Delong; Chan, Stanley H; Cheng, Ji-XinThe journal of physical chemistry. C, Nanomaterials and interfaces.2015 Aug 20;26955400
Visualizing allele-specific expression in single cells reveals epigenetic mosaicism in an H19 loss-of-imprinting mutant.Ginart, Paul; Kalish, Jennifer M; Jiang, Connie L; Yu, Alice C; Bartolomei, Marisa S; Raj, ArjunGenes & development.2016 Mar 1;26944681
Assembly and operation of the autopatcher for automated intracellular neural recording in vivo.Kodandaramaiah, Suhasa B; Holst, Gregory L; Wickersham, Ian R; Singer, Annabelle C; Franzesi, Giovanni Talei; McKinnon, Michael L; Forest, Craig R; Boyden, Edward SNature protocols.2016 Apr;26938115
Spatial colocalization and functional link of purinosomes with mitochondria.French, Jarrod B; Jones, Sara A; Deng, Huayun; Pedley, Anthony M; Kim, Doory; Chan, Chung Yu; Hu, Haibei; Pugh, Raymond J; Zhao, Hong; Zhang, Youxin; Huang, Tony Jun; Fang, Ye; Zhuang, Xiaowei; Benkovic, Stephen JScience (New York, N.Y.).2016 Feb 12;733-726912862
Dynamics of epigenetic regulation at the single-cell level.Bintu, Lacramioara; Yong, John; Antebi, Yaron E; McCue, Kayla; Kazuki, Yasuhiro; Uno, Narumi; Oshimura, Mitsuo; Elowitz, Michael BScience (New York, N.Y.).2016 Feb 12;26912859
Establishment of human iPSC-based models for the study and targeting of glioma initiating cells.Sancho-Martinez, Ignacio; Nivet, Emmanuel; Xia, Yun; Hishida, Tomoaki; Aguirre, Aitor; Ocampo, Alejandro; Ma, Li; Morey, Robert; Krause, Marie N; Zembrzycki, Andreas; Ansorge, Olaf; Vazquez-Ferrer, Eric; Dubova, Ilir; Reddy, Pradeep; Lam, David; Hishida, Yuriko; Wu, Min-Zu; Esteban, Concepcion Rodriguez; O'Leary, Dennis; Wahl, Geoffrey M; Verma, Inder M; Laurent, Louise C; Izpisua Belmonte, Juan CarlosNature communications.2016;26899176
Single-Cell Detection of Secreted A? and sAPP? from Human IPSC-Derived Neurons and Astrocytes.Liao, Mei-Chen; Muratore, Christina R; Gierahn, Todd M; Sullivan, Sarah E; Srikanth, Priya; De Jager, Philip L; Love, J Christopher; Young-Pearse, Tracy LThe Journal of neuroscience : the official journal of the Society for Neuroscience.2016 Feb 3;1730-4626843653
HistoMosaic Detecting KRAS G12V Mutation Across Colorectal Cancer Tissue Slices through in Situ PCR.Raub, Christopher B; Lee, Chen-Chung; Shibata, Darryl; Taylor, Clive; Kartalov, EmilAnalytical chemistry.2016 Mar 01;26820161
Three-dimensional manipulation of single cells using surface acoustic waves.Guo, Feng; Mao, Zhangming; Chen, Yuchao; Xie, Zhiwei; Lata, James P; Li, Peng; Ren, Liqiang; Liu, Jiayang; Yang, Jian; Dao, Ming; Suresh, Subra; Huang, Tony JunProceedings of the National Academy of Sciences of the United States of America.2016 Feb 9;26811444
Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis.Fan, Jean; Salathia, Neeraj; Liu, Rui; Kaeser, Gwendolyn E; Yung, Yun C; Herman, Joseph L; Kaper, Fiona; Fan, Jian-Bing; Zhang, Kun; Chun, Jerold; Kharchenko, Peter VNature methods.2016 Mar;241-426780092
A robust nonlinear tissue-component discrimination method for computational pathology.Sarnecki, Jacob S; Burns, Kathleen H; Wood, Laura D; Waters, Kevin M; Hruban, Ralph H; Wirtz, Denis; Wu, Pei-HsunLaboratory investigation; a journal of technical methods and pathology.2016 Jan 18;26779829
System for Rapid, Precise Modulation of Intraocular Pressure, toward Minimally-Invasive In Vivo Measurement of Intracranial Pressure.Stockslager, Max A; Samuels, Brian C; Allingham, R Rand; Klesmith, Zoe A; Schwaner, Stephen A; Forest, Craig R; Ethier, C RossPloS one.2016;26771837
High-resolution transcriptome analysis reveals neuropathic pain gene-expression signatures in spinal microglia after nerve injury.Jeong, Heejin; Na, Young-Ji; Lee, Kihwan; Kim, Yong Ho; Lee, Yunsin; Kang, Minho; Jiang, Bao-Chun; Yeom, Young Il; Wu, Long-Jun; Gao, Yong-Jing; Kim, Junhyong; Oh, Seog BaePain.2016 Apr;26761385
Highly multiplexed targeted DNA sequencing from single nuclei.Leung, Marco L; Wang, Yong; Kim, Charissa; Gao, Ruli; Jiang, Jerry; Sei, Emi; Navin, Nicholas ENature protocols.2016 Feb;26741407
Expanding the CRISPR imaging toolset with Staphylococcus aureus Cas9 for simultaneous imaging of multiple genomic loci.Chen, Baohui; Hu, Jeffrey; Almeida, Ricardo; Liu, Harrison; Balakrishnan, Sanjeev; Covill-Cooke, Christian; Lim, Wendell A; Huang, BoNucleic acids research.2016 Jan 5;26740581
Adult mouse cortical cell taxonomy revealed by single cell transcriptomics.Tasic, Bosiljka; Menon, Vilas; Nguyen, Thuc Nghi; Kim, Tae Kyung; Jarsky, Tim; Yao, Zizhen; Levi, Boaz; Gray, Lucas T; Sorensen, Staci A; Dolbeare, Tim; Bertagnolli, Darren; Goldy, Jeff; Shapovalova, Nadiya; Parry, Sheana; Lee, Changkyu; Smith, Kimberly; Bernard, Amy; Madisen, Linda; Sunkin, Susan M; Hawrylycz, Michael; Koch, Christof; Zeng, HongkuiNature neuroscience.2016 Feb;26727548
Probing Cell Deformability via Acoustically Actuated Bubbles.Xie, Yuliang; Nama, Nitesh; Li, Peng; Mao, Zhangming; Huang, Po-Hsun; Zhao, Chenglong; Costanzo, Francesco; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2016 Feb 17;26715211
Experimental and numerical studies on standing surface acoustic wave microfluidics.Mao, Zhangming; Xie, Yuliang; Guo, Feng; Ren, Liqiang; Huang, Po-Hsun; Chen, Yuchao; Rufo, Joseph; Costanzo, Francesco; Huang, Tony JunLab on a chip.2016 Feb 7;26698361
Generation and functional assessment of 3D multicellular spheroids in droplet based microfluidics platform.Sabhachandani, P; Motwani, V; Cohen, N; Sarkar, S; Torchilin, V; Konry, TLab on a chip.2016 Jan 26;497-50526686985
Exploring Memory Representations with Activity-Based Genetics.Mayford, Mark; Reijmers, LeonCold Spring Harbor perspectives in biology.2015 Dec 18;26684182
Evolution of cellular morpho-phenotypes in cancer metastasis.Wu, Pei-Hsun; Phillip, Jude M; Khatau, Shyam B; Chen, Wei-Chiang; Stirman, Jeffrey; Rosseel, Sophie; Tschudi, Katherine; Van Patten, Joshua; Wong, Michael; Gupta, Sonal; Baras, Alexander S; Leek, Jeffrey T; Maitra, Anirban; Wirtz, DenisScientific reports.2015 Dec 17;26675084
Single-Cell Cytokine Gene Expression in Peripheral Blood Cells Correlates with Latent Tuberculosis Status.Vir, Pooja; Arrigucci, Riccardo; Lakehal, Karim; Davidow, Amy L; Pine, Richard; Tyagi, Sanjay; Bushkin, Yuri; Lardizabal, Alfred; Gennaro, Maria LauraPloS one.2015;26658491
The Mechanobiology of Aging.Phillip, Jude M; Aifuwa, Ivie; Walston, Jeremy; Wirtz, DenisAnnual review of biomedical engineering.2015;26643020
Untwisting the Caenorhabditis elegans embryo.Christensen, Ryan Patrick; Bokinsky, Alexandra; Santella, Anthony; Wu, Yicong; Marquina-Solis, Javier; Guo, Min; Kovacevic, Ismar; Kumar, Abhishek; Winter, Peter W; Tashakkori, Nicole; McCreedy, Evan; Liu, Huafeng; McAuliffe, Matthew; Mohler, William; Colón-Ramos, Daniel A; Bao, Zhirong; Shroff, HarieLife.2015 Dec 03;26633880
Variation is function: Are single cell differences functionally important?: Testing the hypothesis that single cell variation is required for aggregate function.Dueck, Hannah; Eberwine, James; Kim, JunhyongBioEssays : news and reviews in molecular, cellular and developmental biology.2016 Feb;26625861
T Cell Dynamic Activation and Functional Analysis in Nanoliter Droplet Microarray.Sarkar, Saheli; Motwani, Vinny; Sabhachandani, Pooja; Cohen, Noa; Konry, TaniaJournal of clinical & cellular immunology.2015 Jun;26613065
Cell cycle features of C. elegans germline stem/progenitor cells vary temporally and spatially.Roy, Debasmita; Michaelson, David; Hochman, Tsivia; Santella, Anthony; Bao, Zhirong; Goldberg, Judith D; Hubbard, E Jane AlbertDevelopmental biology.2016 Jan 1;261-7126577869
Acceleration of reaction in charged microdroplets.Lee, Jae Kyoo; Banerjee, Shibdas; Nam, Hong Gil; Zare, Richard NQuarterly reviews of biophysics.2015 Nov;26537403
Collective cancer cell invasion induced by coordinated contractile stresses.Jimenez Valencia, Angela M; Wu, Pei-Hsun; Yogurtcu, Osman N; Rao, Pranay; DiGiacomo, Josh; Godet, Inês; He, Lijuan; Lee, Meng-Horng; Gilkes, Daniele; Sun, Sean X; Wirtz, DenisOncotarget.2015 Dec 22;26528856
Cytometry-based single-cell analysis of intact epithelial signaling reveals MAPK activation divergent from TNF-?-induced apoptosis in vivo.Simmons, Alan J; Banerjee, Amrita; McKinley, Eliot T; Scurrah, Cherie' R; Herring, Charles A; Gewin, Leslie S; Masuzaki, Ryota; Karp, Seth J; Franklin, Jeffrey L; Gerdes, Michael J; Irish, Jonathan M; Coffey, Robert J; Lau, Ken SMolecular systems biology.2015 Oct;83526519361
Modeling developmental neuropsychiatric disorders with iPSC technology: challenges and opportunities.Young-Pearse, Tracy L; Morrow, Eric MCurrent opinion in neurobiology.2016 Feb;66-7326517284
Local 3D matrix confinement determines division axis through cell shape.He, Lijuan; Chen, Weitong; Wu, Pei-Hsun; Jimenez, Angela; Wong, Bin Sheng; San, Angela; Konstantopoulos, Konstantinos; Wirtz, DenisOncotarget.2016 Feb 09;26515603
Reusable acoustic tweezers for disposable devices.Guo, Feng; Xie, Yuliang; Li, Sixing; Lata, James; Ren, Liqiang; Mao, Zhangming; Ren, Baiyang; Wu, Mengxi; Ozcelik, Adem; Huang, Tony JunLab on a chip.2015 Dec 21;4517-2326507411
Digital development: a database of cell lineage differentiation in C. elegans with lineage phenotypes, cell-specific gene functions and a multiscale model.Santella, Anthony; Kovacevic, Ismar; Herndon, Laura A; Hall, David H; Du, Zhuo; Bao, ZhirongNucleic acids research.2016 Jan 4;26503254
Senescent stromal cells induce cancer cell migration via inhibition of RhoA/ROCK/myosin-based cell contractility.Aifuwa, Ivie; Giri, Anjil; Longe, Nick; Lee, Sang Hyuk; An, Steven S; Wirtz, DenisOncotarget.2015 Oct 13;30516-3126483365
Induced pluripotent stem cells as a discovery tool for Alzheimer?s disease.Sullivan, Sarah E; Young-Pearse, Tracy LBrain research.2015 Oct 13;26459988
Phenotypic drug profiling in droplet microfluidics for better targeting of drug-resistant tumors.Sarkar, S; Cohen, N; Sabhachandani, P; Konry, TLab on a chip.2015 Dec 7;4441-5026456240
The origin and implementation of the Broadening Experiences in Scientific Training programs: an NIH common fund initiative.F.J. Meyers, A. Mathur, C.N. Fuhrmann, T.C. O’Brien, I. Wefes, P.A. Labosky, D.S. Duncan, A. August, A. Feig, K.L. Gould, M.J. Friedlander, C.B. Schaffer, A. Van Wart, and R. ChalkleyThe FASEB Journal2015 Oct 2;26432783
Half dozen of one, six billion of the other: What can small- and large-scale molecular systems biology learn from one another?Mellis, Ian A; Raj, ArjunGenome research.2015 Oct;1466-7226430156
Three-dimensional matrix fiber alignment modulates cell migration and MT1-MMP utility by spatially and temporally directing protrusions.Fraley, Stephanie I; Wu, Pei-Hsun; He, Lijuan; Feng, Yunfeng; Krisnamurthy, Ranjini; Longmore, Gregory D; Wirtz, DenisScientific reports.2015;1458026423227
Acousto-plasmofluidics: Acoustic modulation of surface plasmon resonance in microfluidic systems.Ahmed, Daniel; Peng, Xiaolei; Ozcelik, Adem; Zheng, Yuebing; Huang, Tony JunAIP advances.2015 Sep;26421224
Cellular Deconstruction: Finding Meaning in Individual Cell Variation.Eberwine, James; Kim, JunhyongTrends in cell biology.2015 Oct;569-7826410403
Functional enrichment by direct plasmid recovery after fluorescence activated cell sorting.Ramesh, Balakrishnan; Frei, Christopher S; Cirino, Patrick C; Varadarajan, NavinBioTechniques.2015 Sep;157-6126345509
Thermally multiplexed polymerase chain reaction.Phaneuf, Christopher R; Pak, Nikita; Saunders, D Curtis; Holst, Gregory L; Birjiniuk, Joav; Nagpal, Nikita; Culpepper, Stephen; Popler, Emily; Shane, Andi L; Jerris, Robert; Forest, Craig RBiomicrofluidics.2015 Jul;26339317
A spatiotemporally controllable chemical gradient generator via acoustically oscillating sharp-edge structures.Huang, Po-Hsun; Chan, Chung Yu; Li, Peng; Nama, Nitesh; Xie, Yuliang; Wei, Cheng-Hsin; Chen, Yuchao; Ahmed, Daniel; Huang, Tony JunLab on a chip.2015 Nov 7;4166-7626338516
Normal mammary epithelial cells promote carcinoma basement membrane invasion by inducing microtubule-rich protrusions.Lee, Meng-Horng; Wu, Pei-Hsun; Gilkes, Daniele; Aifuwa, Ivie; Wirtz, DenisOncotarget.2015 Oct 20;32634-4526334095
Acoustofluidic Fluorescence Activated Cell Sorter.Nawaz, Ahmad Ahsan; Chen, Yuchao; Nama, Nitesh; Nissly, Ruth Helmus; Ren, Liqiang; Ozcelik, Adem; Wang, Lin; McCoy, J Philip; Levine, Stewart J; Huang, Tony JunAnalytical chemistry.2015 Dec 15;26331909
Tuning Sensitivity of CAR to EGFR Density Limits Recognition of Normal Tissue While Maintaining Potent Antitumor Activity.Caruso, Hillary G; Hurton, Lenka V; Najjar, Amer; Rushworth, David; Ang, Sonny; Olivares, Simon; Mi, Tiejuan; Switzer, Kirsten; Singh, Harjeet; Huls, Helen; Lee, Dean A; Heimberger, Amy B; Champlin, Richard E; Cooper, Laurence J NCancer research.2015 Sep 1;3505-1826330164
The Regulatory Landscape of Lineage Differentiation in a Metazoan Embryo.Du, Zhuo; Santella, Anthony; He, Fei; Shah, Pavak K; Kamikawa, Yuko; Bao, ZhirongDevelopmental cell.2015 Sep 14;592-60726321128
A high-throughput acoustic cell sorter.Ren, Liqiang; Chen, Yuchao; Li, Peng; Mao, Zhangming; Huang, Po-Hsun; Rufo, Joseph; Guo, Feng; Wang, Lin; McCoy, J Philip; Levine, Stewart J; Huang, Tony JunLab on a chip.2015 Oct 7;3870-926289231
Stress Enables Reinforcement-Elicited Serotonergic Consolidation of Fear Memory.Baratta, Michael V; Kodandaramaiah, Suhasa B; Monahan, Patrick E; Yao, Junmei; Weber, Michael D; Lin, Pei-Ann; Gisabella, Barbara; Petrossian, Natalie; Amat, Jose; Kim, Kyungman; Yang, Aimei; Forest, Craig R; Boyden, Edward S; Goosens, Ki ABiological psychiatry.2016 May 15;26248536
Imaging Tumor Acidity: pH-Low Insertion Peptide Probe for Optoacoustic Tomography.Reshetnyak, Yana KClinical cancer research : an official journal of the American Association for Cancer Research.2015 Jul 29;26224874
Exploring bubble oscillation and mass transfer enhancement in acoustic-assisted liquid-liquid extraction with a microfluidic device.Xie, Yuliang; Chindam, Chandraprakash; Nama, Nitesh; Yang, Shikuan; Lu, Mengqian; Zhao, Yanhui; Mai, John D; Costanzo, Francesco; Huang, Tony JunScientific reports.2015;1257226223474
Integration of cell-cell and cell-ECM adhesion in vertebrate morphogenesis.McMillen, Patrick; Holley, Scott ACurrent opinion in cell biology.2015 Oct;48-5326189063
C. elegans SoxB genes are dispensable for embryonic neurogenesis but required for terminal differentiation of specific neuron types.Vidal, Berta; Santella, Anthony; Serrano-Saiz, Esther; Bao, Zhirong; Chuang, Chiou-Fen; Hobert, OliverDevelopment (Cambridge, England).2015 Jul 15;26153233
Plasmofluidics: Merging Light and Fluids at the Micro-/Nanoscale.Wang, Mingsong; Zhao, Chenglong; Miao, Xiaoyu; Zhao, Yanhui; Rufo, Joseph; Liu, Yan Jun; Huang, Tony Jun; Zheng, YuebingSmall (Weinheim an der Bergstrasse, Germany).2015 Sep 16;4423-4426140612
Piwi Is a Key Regulator of Both Somatic and Germline Stem Cells in the Drosophila Testis.Gonzalez, Jacob; Qi, Hongying; Liu, Na; Lin, HaifanCell reports.2015 Jul 7;150-6126119740
Multiplexed detection of viral infections using rapid in situ RNA analysis on a chip.Shaffer, Sydney M; Joshi, Rohan P; Chambers, Benjamin S; Sterken, David; Biaesch, Andrew G; Gabrieli, David J; Li, Yang; Feemster, Kristen A; Hensley, Scott E; Issadore, David; Raj, ArjunLab on a chip.2015 Aug 7;3170-8226113495
Inhibition of Spleen Tyrosine Kinase Potentiates Paclitaxel-Induced Cytotoxicity in Ovarian Cancer Cells by Stabilizing Microtubules.Yu, Yu; Gaillard, Stephanie; Phillip, Jude M; Huang, Tai-Chung; Pinto, Sneha M; Tessarollo, Nayara G; Zhang, Zhen; Pandey, Akhilesh; Wirtz, Denis; Ayhan, Ayse; Davidson, Ben; Wang, Tian-Li; Shih, Ie-MingCancer cell.2015 Jul 13;82-9626096845
POS-1 Promotes Endo-mesoderm Development by Inhibiting the Cytoplasmic Polyadenylation of neg-1 mRNA.Elewa, Ahmed; Shirayama, Masaki; Kaymak, Ebru; Harrison, Paul F; Powell, David R; Du, Zhuo; Chute, Christopher D; Woolf, Hannah; Yi, Dongni; Ishidate, Takao; Srinivasan, Jagan; Bao, Zhirong; Beilharz, Traude H; Ryder, Sean P; Mello, Craig CDevelopmental cell.2015 Jul 6;26096734
Automated profiling of individual cell-cell interactions from high-throughput time-lapse imaging microscopy in nanowell grids (TIMING).Merouane, Amine; Rey-Villamizar, Nicolas; Lu, Yanbin; Liadi, Ivan; Romain, Gabrielle; Lu, Jennifer; Singh, Harjeet; Cooper, Laurence J N; Varadarajan, Navin; Roysam, BadrinathBioinformatics (Oxford, England).2015 Oct 1;3189-9726059718
Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation.Dueck, Hannah; Khaladkar, Mugdha; Kim, Tae Kyung; Spaethling, Jennifer M; Francis, Chantal; Suresh, Sangita; Fisher, Stephen A; Seale, Patrick; Beck, Sheryl G; Bartfai, Tamas; Kuhn, Bernhard; Eberwine, James; Kim, JunhyongGenome biology.2015;12226056000
Mechanical Allostery: Evidence for a Force Requirement in the Proteolytic Activation of Notch.Gordon, Wendy R; Zimmerman, Brandon; He, Li; Miles, Laura J; Huang, Jiuhong; Tiyanont, Kittichoat; McArthur, Debbie G; Aster, Jon C; Perrimon, Norbert; Loparo, Joseph J; Blacklow, Stephen CDevelopmental cell.2015 Jun 22;729-3626051539
WormGUIDES: an interactive single cell developmental atlas and tool for collaborative multidimensional data exploration.Santella, Anthony; Catena, Raúl; Kovacevic, Ismar; Shah, Pavak; Yu, Zidong; Marquina-Solis, Javier; Kumar, Abhishek; Wu, Yicong; Schaff, James; Colón-Ramos, Daniel; Shroff, Hari; Mohler, William A; Bao, ZhirongBMC bioinformatics.2015;18926051157
Scalable microfluidics for single-cell RNA printing and sequencing.Bose, Sayantan; Wan, Zhenmao; Carr, Ambrose; Rizvi, Abbas H; Vieira, Gregory; Pe'er, Dana; Sims, Peter AGenome biology.2015;12026047807
Variations in dysfunction of sister chromatid cohesion in esco2 mutant zebrafish reflect the phenotypic diversity of Roberts syndrome.Percival, Stefanie M; Thomas, Holly R; Amsterdam, Adam; Carroll, Andrew J; Lees, Jacqueline A; Yost, H Joseph; Parant, John MDisease models & mechanisms.2015 Aug 1;941-5526044958
Compact and modular multicolour fluorescence detector for droplet microfluidics.Cole, Russell H; de Lange, Niek; Gartner, Zev J; Abate, Adam RLab on a chip.2015 Jul 7;2754-826032595
A New Interleukin-13 Amino-Coated Gadolinium Metallofullerene Nanoparticle for Targeted MRI Detection of Glioblastoma Tumor Cells.Li, Tinghui; Murphy, Susan; Kiselev, Boris; Bakshi, Kanwarpal S; Zhang, Jianyuan; Eltahir, Amnah; Zhang, Yafen; Chen, Ying; Zhu, Jie; Davis, Richey M; Madsen, Louis A; Morris, John R; Karolyi, Daniel R; LaConte, Stephen M; Sheng, Zhi; Dorn, Harry CJournal of the American Chemical Society.2015 Jun 24;7881-826022213
Numerical study of acoustophoretic motion of particles in a PDMS microchannel driven by surface acoustic waves.Nama, Nitesh; Barnkob, Rune; Mao, Zhangming; Kähler, Christian J; Costanzo, Francesco; Huang, Tony JunLab on a chip.2015 Jun 21;2700-926001199
Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.Klein, Allon M; Mazutis, Linas; Akartuna, Ilke; Tallapragada, Naren; Veres, Adrian; Li, Victor; Peshkin, Leonid; Weitz, David A; Kirschner, Marc WCell.2015 May 21;1187-20126000487
Rapid and Localized Mechanical Stimulation and Adhesion Assay: TRPM7 Involvement in Calcium Signaling and Cell Adhesion.Nishitani, Wagner Shin; Alencar, Adriano Mesquita; Wang, YingxiaoPloS one.2015;e012644025946314
Tuning noise in gene expression.Tyagi, SanjayMolecular systems biology.2015 May;80525943344
Single-cell mass spectrometry reveals small molecules that affect cell fates in the 16-cell embryo.Onjiko, Rosemary M; Moody, Sally A; Nemes, PeterProceedings of the National Academy of Sciences of the United States of America.2015 May 26;6545-5025941375
Transforming training to reflect the workforce.Mathur, Ambika; Meyers, Frederick J; Chalkley, Roger; O'Brien, Theresa C; Fuhrmann, Cynthia NScience translational medicine.2015 Apr 29;285ed425925677
Closed-loop, ultraprecise, automated craniotomies.Pak, Nikita; Siegle, Joshua H; Kinney, Justin P; Denman, Daniel J; Blanche, Timothy J; Boyden, Edward SJournal of neurophysiology.2015 Jun 1;3943-5325855700
SNES: single nucleus exome sequencing.Leung, Marco L; Wang, Yong; Waters, Jill; Navin, Nicholas EGenome biology.2015;5525853327
Acoustic separation of circulating tumor cells.Li, Peng; Mao, Zhangming; Peng, Zhangli; Zhou, Lanlan; Chen, Yuchao; Huang, Po-Hsun; Truica, Cristina I; Drabick, Joseph J; El-Deiry, Wafik S; Dao, Ming; Suresh, Subra; Huang, Tony JunProceedings of the National Academy of Sciences of the United States of America.2015 Apr 21;4970-525848039
Neuregulin stimulation of cardiomyocyte regeneration in mice and human myocardium reveals a therapeutic window.Polizzotti, Brian D; Ganapathy, Balakrishnan; Walsh, Stuart; Choudhury, Sangita; Ammanamanchi, Niyatie; Bennett, David G; dos Remedios, Cristobal G; Haubner, Bernhard J; Penninger, Josef M; Kühn, BernhardScience translational medicine.2015 Apr 1;281ra4525834111
Brief Report: Oxidative Stress Mediates Cardiomyocyte Apoptosis in a Human Model of Danon Disease and Heart Failure.Hashem, Sherin I; Perry, Cynthia N; Bauer, Matthieu; Han, Sangyoon; Clegg, Stacey D; Ouyang, Kunfu; Deacon, Dekker C; Spinharney, Mary; Panopoulos, Athanasia D; Izpisua Belmonte, Juan Carlos; Frazer, Kelly A; Chen, Ju; Gong, Qiuming; Zhou, Zhengfeng; Chi,Stem cells (Dayton, Ohio).2015 Jul;2343-5025826782
The tissue mechanics of vertebrate body elongation and segmentation.McMillen, Patrick; Holley, Scott ACurrent opinion in genetics & development.2015 Jun;106-1125796079
Microdroplet fusion mass spectrometry for fast reaction kinetics.Lee, Jae Kyoo; Kim, Samuel; Nam, Hong Gil; Zare, Richard NProceedings of the National Academy of Sciences of the United States of America.2015 Mar 31;25775573
Identification of novel long noncoding RNAs underlying vertebrate cardiovascular development.Kurian, Leo; Aguirre, Aitor; Sancho-Martinez, Ignacio; Benner, Christopher; Hishida, Tomoaki; Nguyen, Thai B; Reddy, Pradeep; Nivet, Emmanuel; Krause, Marie N; Nelles, David A; Rodriguez Esteban, Concepcion; Campistol, Josep M; Yeo, Gene W; Izpisua BelmonCirculation.2015 Apr 7;1278-9025739401
Ploidy-Seq: inferring mutational chronology by sequencing polyploid tumor subpopulations.Malhotra, Ankit; Wang, Yong; Waters, Jill; Chen, Ken; Meric-Bernstam, Funda; Hall, Ira M; Navin, Nicholas EGenome medicine.2015;625729435
Statistical analysis of cell migration in 3D using the anisotropic persistent random walk model.Wu, Pei-Hsun; Giri, Anjil; Wirtz, DenisNature protocols.2015 Mar;517-2725719270
Normalization and noise reduction for single cell RNA-seq experiments.Ding, Bo; Zheng, Lina; Zhu, Yun; Li, Nan; Jia, Haiyang; Ai, Rizi; Wildberg, Andre; Wang, WeiBioinformatics (Oxford, England).2015 Jul 1;2225-725717193
Individual Motile CD4(+) T Cells Can Participate in Efficient Multikilling through Conjugation to Multiple Tumor Cells.Liadi, Ivan; Singh, Harjeet; Romain, Gabrielle; Rey-Villamizar, Nicolas; Merouane, Amine; Adolacion, Jay R T; Kebriaei, Partow; Huls, Helen; Qiu, Peng; Roysam, Badrinath; Cooper, Laurence J N; Varadarajan, NavinCancer immunology research.2015 May;473-8225711538
COX-2 dependent regulation of mechanotransduction in human breast cancer cells.Yoon, A-Rum; Stasinopoulos, Ioannis; Kim, Jae Hun; Yong, Hwan Mee; Kilic, Onur; Wirtz, Denis; Bhujwalla, Zaver M; An, Steven SCancer biology & therapy.2015;430-725701047
Cytoskeletal tension induces the polarized architecture of the nucleus.Kim, Dong-Hwee; Wirtz, DenisBiomaterials.2015 Apr;161-7225701041
Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues.Lee, Je Hyuk; Daugharthy, Evan R; Scheiman, Jonathan; Kalhor, Reza; Ferrante, Thomas C; Terry, Richard; Turczyk, Brian M; Yang, Joyce L; Lee, Ho Suk; Aach, John; Zhang, Kun; Church, George MNature protocols.2015 Mar;442-5825675209
Single-cell analysis shows that paracrine signaling by first responder cells shapes the interferon-? response to viral infection.Patil, Sonali; Fribourg, Miguel; Ge, Yongchao; Batish, Mona; Tyagi, Sanjay; Hayot, Fernand; Sealfon, Stuart CScience signaling.2015 Feb 10;ra1625670204
Distinct mechanisms regulating mechanical force-induced Ca²? signals at the plasma membrane and the ER in human MSCs.Kim, Tae-Jin; Joo, Chirlmin; Seong, Jihye; Vafabakhsh, Reza; Botvinick, Elliot L; Berns, Michael W; Palmer, Amy E; Wang, Ning; Ha, Taekjip; Jakobsson, Eric; Sun, Jie; Wang, YingxiaoeLife.2015;e0487625667984
Precise Manipulation and Patterning of Protein Crystals for Macromolecular Crystallography Using Surface Acoustic Waves.Guo, Feng; Zhou, Weijie; Li, Peng; Mao, Zhangming; Yennawar, Neela H; French, Jarrod B; Huang, Tony JunSmall (Weinheim an der Bergstrasse, Germany).2015 Jun;2733-725641793
Controlling lipid micelle stability using oligonucleotide headgroups.Wilner, Samantha E; Sparks, Samuel E; Cowburn, David; Girvin, Mark E; Levy, MatthewJournal of the American Chemical Society.2015 Feb 18;2171-425634639
Advanced targeted nanomedicine.Arachchige, Mohan C M; Reshetnyak, Yana K; Andreev, Oleg AJournal of biotechnology.2015 May 20;88-9725615945
Optical clearing in dense connective tissues to visualize cellular connectivity in situ.Calve, Sarah; Ready, Andrew; Huppenbauer, Christopher; Main, Russell; Neu, Corey PPloS one.2015;e011666225581165
Single-cell transcriptome analysis reveals dynamic changes in lncRNA expression during reprogramming.Kim, Daniel H; Marinov, Georgi K; Pepke, Shirley; Singer, Zakary S; He, Peng; Williams, Brian; Schroth, Gary P; Elowitz, Michael B; Wold, Barbara JCell stem cell.2015 Jan 8;88-10125575081
Single-neuron isolation for RNA analysis using pipette capture and laser capture microdissection.Lovatt, Ditte; Bell, Thomas; Eberwine, JamesCold Spring Harbor protocols.2015 Jan;pdb.prot07243925561613
Efficient delivery and functional expression of transfected modified mRNA in human embryonic stem cell-derived retinal pigmented epithelial cells.Hansson, Magnus L; Albert, Silvia; González Somermeyer, Louisa; Peco, Rubén; Mejía-Ramírez, Eva; Montserrat, Núria; Izpisua Belmonte, Juan CarlosThe Journal of biological chemistry.2015 Feb 27;5661-7225555917
Controlling cell-cell interactions using surface acoustic waves.Guo, Feng; Li, Peng; French, Jarrod B; Mao, Zhangming; Zhao, Hong; Li, Sixing; Nama, Nitesh; Fick, James R; Benkovic, Stephen J; Huang, Tony JunProceedings of the National Academy of Sciences of the United States of America.2015 Jan 6;43-825535339
E3 ubiquitin ligases promote progression of differentiation during C. elegans embryogenesis.Du, Zhuo; He, Fei; Yu, Zidong; Bowerman, Bruce; Bao, ZhirongDevelopmental biology.2015 Feb 15;267-7925523393
In vivo activation of a conserved microRNA program induces mammalian heart regeneration.Aguirre, Aitor; Montserrat, Nuria; Zacchigna, Serena; Nivet, Emmanuel; Hishida, Tomoaki; Krause, Marie N; Kurian, Leo; Ocampo, Alejandro; Vazquez-Ferrer, Eric; Rodriguez-Esteban, Concepcion; Kumar, Sachin; Moresco, James J; Yates 3rd, John R; Campistol, JCell stem cell.2014 Nov 6;589-60425517466
Transcriptional expression of myelin basic protein in oligodendrocytes depends on functional syntaxin 4: a potential correlation with autocrine signaling.Bijlard, Marjolein; Klunder, Bert; de Jonge, Jenny C; Nomden, Anita; Tyagi, Sanjay; de Vries, Hans; Hoekstra, Dick; Baron, WiaMolecular and cellular biology.2015 Feb;675-8725512606
Profiling T cell activation using single-molecule fluorescence in situ hybridization and flow cytometry.Bushkin, Yuri; Radford, Felix; Pine, Richard; Lardizabal, Alfred; Mangura, Bonita T; Gennaro, Maria Laura; Tyagi, SanjayJournal of immunology (Baltimore, Md. : 1950).2015 Jan 15;836-4125505292
High-throughput genome editing and phenotyping facilitated by high resolution melting curve analysis.Thomas, Holly R; Percival, Stefanie M; Yoder, Bradley K; Parant, John MPloS one.2014;e11463225503746
Single-cell variation leads to population invariance in NF-*B signaling dynamics.Hughey, Jacob J; Gutschow, Miriam V; Bajar, Bryce T; Covert, Markus WMolecular biology of the cell.2015 Feb 1;583-9025473117
RE: stem cells loaded with multimechanistic oncolytic herpes simplex virus variants for brain tumor therapy.Krause, Marie N; Sancho-Martinez, Ignacio; Izpisua Belmonte, Juan CarlosJournal of the National Cancer Institute.2015 Jan;36825473104
Switching from protease-independent to protease-dependent cancer cell invasion.He, Lijuan; Wirtz, DenisBiophysical journal.2014 Dec 2;2484-525468324
Reprogramming by lineage specifiers: blurring the lines between pluripotency and differentiation.Sancho-Martinez, Ignacio; Ocampo, Alejandro; Izpisua Belmonte, Juan CarlosCurrent opinion in genetics & development.2014 Oct;57-6325461451
Optical clearing in collagen- and proteoglycan-rich osteochondral tissues.Neu, C P; Novak, T; Gilliland, K F; Marshall, P; Calve, SOsteoarthritis and cartilage / OARS, Osteoarthritis Research Society.2015 Mar;405-1325454370
Microchip amplifier for in vitro, in vivo, and automated whole cell patch-clamp recording.Harrison, Reid R; Kolb, Ilya; Kodandaramaiah, Suhasa B; Chubykin, Alexander A; Yang, Aimei; Bear, Mark F; Boyden, Edward S; Forest, Craig RJournal of neurophysiology.2015 Feb 15;1275-8225429119
Single-cell tracking with PET using a novel trajectory reconstruction algorithm.Lee, Keum Sil; Kim, Tae Jin; Pratx, GuillemIEEE transactions on medical imaging.2015 Apr;994-100325423651
Acoustofluidic chemical waveform generator and switch.Ahmed, Daniel; Muddana, Hari S; Lu, Mengqian; French, Jarrod B; Ozcelik, Adem; Fang, Ye; Butler, Peter J; Benkovic, Stephen J; Manz, Andreas; Huang, Tony JunAnalytical chemistry.2014 Dec 2;11803-1025405550
Standing surface acoustic wave (SSAW)-based cell washing.Li, Sixing; Ding, Xiaoyun; Mao, Zhangming; Chen, Yuchao; Nama, Nitesh; Guo, Feng; Li, Peng; Wang, Lin; Cameron, Craig E; Huang, Tony JunLab on a chip.2015 Jan 7;331-825372273
Antisense RNA amplification for target assessment of total mRNA from a single cell.Morris, Jacqueline; Bell, Thomas J; Buckley, Peter T; Eberwine, James HCold Spring Harbor protocols.2014 Nov 03;25368303
Prolonged mechanical stretch initiates intracellular calcium oscillations in human mesenchymal stem cells.Kim, Tae-Jin; Sun, Jie; Lu, Shaoying; Qi, Ying-Xin; Wang, YingxiaoPloS one.2014;e10937825329052
Direct reactivation of a coherent neocortical memory of context.Cowansage, Kiriana K; Shuman, Tristan; Dillingham, Blythe C; Chang, Allene; Golshani, Peyman; Mayford, MarkNeuron.2014 Oct 22;25308330
Cardiac regeneration based on mechanisms of cardiomyocyte proliferation and differentiation.Senyo, Samuel E; Lee, Richard T; Kuhn, BernhardStem cell research.2014 Nov;532-4125306390
Dual-view plane illumination microscopy for rapid and spatially isotropic imaging.Kumar, Abhishek; Wu, Yicong; Christensen, Ryan; Chandris, Panagiotis; Gandler, William; McCreedy, Evan; Bokinsky, Alexandra; Colon-Ramos, Daniel A; Bao, Zhirong; McAuliffe, Matthew; Rondeau, Gary; Shroff, HariNature protocols.2014 Nov;2555-7325299154
The KRUPPEL-like transcription factor DATILOGRAFO is required in specific cholinergic neurons for sexual receptivity in Drosophila females.Schinaman, Joseph Moeller; Giesey, Rachel Lynn; Mizutani, Claudia Mieko; Lukacsovich, Tamas; Sousa-Neves, RuiPLoS biology.2014 Oct;e100196425291190
Tip-enhanced laser ablation sample transfer for biomolecule mass spectrometry.Ghorai, Suman; Seneviratne, Chinthaka A; Murray, Kermit KJournal of the American Society for Mass Spectrometry.2015 Jan;63-7025287125
Functional imaging in OA: role of imaging in the evaluation of tissue biomechanics.Neu, C POsteoarthritis and cartilage / OARS, Osteoarthritis Research Society.2014 Oct;1349-5925278049
Muscling up the heart: a preadolescent cardiomyocyte proliferation contributes to heart growth.Zhang, Cheng-Hai; Kuhn, BernhardCirculation research.2014 Sep 26;690-225258401
Antibody Fc engineering improves frequency and promotes kinetic boosting of serial killing mediated by NK cells.Romain, Gabrielle; Senyukov, Vladimir; Rey-Villamizar, Nicolas; Merouane, Amine; Kelton, William; Liadi, Ivan; Mahendra, Ankit; Charab, Wissam; Georgiou, George; Roysam, Badrinath; Lee, Dean A; Varadarajan, NavinBlood.2014 Nov 20;3241-925232058
Cancer genomics: one cell at a time.Navin, Nicholas EGenome biology.2014;45225222669
Loss of IP3R-dependent Ca2+ signalling in thymocytes leads to aberrant development and acute lymphoblastic leukemia.Ouyang, Kunfu; Leandro Gomez-Amaro, Rafael; Stachura, David L; Tang, Huayuan; Peng, Xiaohong; Fang, Xi; Traver, David; Evans, Sylvia M; Chen, JuNature communications.2014 Sep 12;25215520
Sorting out where fibroblasts come from.Moore-Morris, Thomas; Tallquist, Michelle D; Evans, Sylvia MCirculation research.2014 Sep 12;602-425214570
Conversion of human fibroblasts into monocyte-like progenitor cells.Pulecio, Julian; Nivet, Emmanuel; Sancho-Martinez, Ignacio; Vitaloni, Marianna; Guenechea, Guillermo; Xia, Yun; Kurian, Leo; Dubova, Ilir; Bueren, Juan; Laricchia-Robbio, Leopoldo; Izpisua Belmonte, Juan CarlosStem cells (Dayton, Ohio).2014 Nov;2923-3825175072
Modeling of the dorsal gradient across species reveals interaction between embryo morphology and Toll signaling pathway during evolution.Ambrosi, Priscilla; Chahda, Juan Sebastian; Koslen, Hannah R; Chiel, Hillel J; Mizutani, Claudia MiekoPLoS computational biology.2014 Aug;e100380725165818
Spatial and temporal organization of signaling pathways.Housden, Benjamin E; Perrimon, NorbertTrends in biochemical sciences.2014 Oct;457-6425155749
Single-Cell Phenotyping within Transparent Intact Tissue through Whole-Body Clearing.Yang, Bin; Treweek, Jennifer B; Kulkarni, Rajan P; Deverman, Benjamin E; Chen, Chun-Kan; Lubeck, Eric; Shah, Sheel; Cai, Long; Gradinaru, VivianaCell2014 Aug 14945-5825088144
Single-cell imaging of mechanotransduction in endothelial cells.Lu, Shaoying; Wang, YingxiaoProgress in molecular biology and translational science.2014;25081613
Clonal evolution in breast cancer revealed by single nucleus genome sequencing.Wang, Yong; Waters, Jill; Leung, Marco L; Unruh, Anna; Roh, Whijae; Shi, Xiuqing; Chen, Ken; Scheet, Paul; Vattathil, Selina; Liang, Han; Multani, Asha; Zhang, Hong; Zhao, Rui; Michor, Franziska; Meric-Bernstam, Funda; Navin, Nicholas ENature2014 Aug 14155-6025079324
Dynamic heterogeneity and DNA methylation in embryonic stem cells.Singer, Zakary S; Yong, John; Tischler, Julia; Hackett, Jamie A; Altinok, Alphan; Surani, M Azim; Cai, Long; Elowitz, Michael BMolecular cell.2014 Jul 17;319-3125038413
Targeting breast tumors with pH (low) insertion peptides.Adochite, Ramona-Cosmina; Moshnikova, Anna; Carlin, Sean D; Guerrieri, Renato A; Andreev, Oleg A; Lewis, Jason S; Reshetnyak, Yana KMolecular pharmaceutics.2014 Aug 4;2896-90525004202
Regeneration: making muscle from hPSCs.Zhu, Xiping; Fu, Lina; Yi, Fei; Liu, Guang-Hui; Ocampo, Alejandro; Qu, Jing; Izpisua Belmonte, Juan CarlosCell research.2014 Oct;1159-6125001388
Modelling Fanconi anemia pathogenesis and therapeutics using integration-free patient-derived iPSCs.Liu, Guang-Hui; Suzuki, Keiichiro; Li, Mo; Qu, Jing; Montserrat, Nuria; Tarantino, Carolina; Gu, Ying; Yi, Fei; Xu, Xiuling; Zhang, Weiqi; Ruiz, Sergio; Plongthongkum, Nongluk; Zhang, Kun; Masuda, Shigeo; Nivet, Emmanuel; Tsunekawa, Yuji; Soligalla, Rupa Nature communications.2014;433024999918
Noninvasive optical inhibition with a red-shifted microbial rhodopsin.Chuong, Amy S; Miri, Mitra L; Busskamp, Volker; Matthews, Gillian A C; Acker, Leah C; Sorensen, Andreas T; Young, Andrew; Klapoetke, Nathan C; Henninger, Mike A; Kodandaramaiah, Suhasa B; Ogawa, Masaaki; Ramanlal, Shreshtha B; Bandler, Rachel C; Allen, BrNature neuroscience2014 Aug1123-924997763
Targeted gene correction minimally impacts whole-genome mutational load in human-disease-specific induced pluripotent stem cell clones.Suzuki, Keiichiro; Yu, Chang; Qu, Jing; Li, Mo; Yao, Xiaotian; Yuan, Tingting; Goebl, April; Tang, Senwei; Ren, Ruotong; Aizawa, Emi; Zhang, Fan; Xu, Xiuling; Soligalla, Rupa Devi; Chen, Feng; Kim, Jessica; Kim, Na Young; Liao, Hsin-Kai; Benner, Chris; EsCell stem cell.2014 Jul 3;31-624996168
The regulation of *-adrenergic receptor-mediated PKA activation by substrate stiffness via microtubule dynamics in human MSCs.Kim, Tae-Jin; Sun, Jie; Lu, Shaoying; Zhang, Jin; Wang, YingxiaoBiomaterials2014 Jun 24NULL24973298
Comparison of intervertebral disc displacements measured under applied loading with MRI at 3.0 T and 9.4 T.Chan, Deva D; Gossett, Paull C; Butz, Kent D; Nauman, Eric A; Neu, Corey PJournal of biomechanics.2014 Aug 22;2801-624968943
A semi-local neighborhood-based framework for probabilistic cell lineage tracing.Santella, Anthony; Du, Zhuo; Bao, ZhirongBMC bioinformatics.2014;21724964866
High-sensitivity measurements of multiple kinase activities in live single cells.Regot, Sergi; Hughey, Jacob J; Bajar, Bryce T; Carrasco, Silvia; Covert, Markus WCell2014 Jun 191724-3424949979
Resident fibroblast lineages mediate pressure overload-induced cardiac fibrosis.Moore-Morris, Thomas; Guimaraes-Camboa, Nuno; Banerjee, Indroneal; Zambon, Alexander C; Kisseleva, Tatiana; Velayoudon, Aurelie; Stallcup, William B; Gu, Yusu; Dalton, Nancy D; Cedenilla, Marta; Gomez-Amaro, Rafael; Zhou, Bin; Brenner, David A; Peterson, The Journal of clinical investigation2014 Jul 12921-3424937432
The 3D Genome in Transcriptional Regulation and Pluripotency.Gorkin, David U; Leung, Danny; Ren, BingCell stem cell2014 Jun 5762-77524905166
Simultaneous whole-animal 3D imaging of neuronal activity using light-field microscopy.Prevedel, Robert; Yoon, Young-Gyu; Hoffmann, Maximilian; Pak, Nikita; Wetzstein, Gordon; Kato, Saul; Schrodel, Tina; Raskar, Ramesh; Zimmer, Manuel; Boyden, Edward S; Vaziri, AlipashaNature methods2014 May 18NULL24836920
Spermatid cyst polarization in Drosophila depends upon apkc and the CPEB family translational regulator orb2.Xu, Shuwa; Tyagi, Sanjay; Schedl, PaulPLoS genetics2014 Maye100438024830287
Hypoxia and the extracellular matrix: drivers of tumour metastasis.Gilkes, Daniele M; Semenza, Gregg L; Wirtz, DenisNature reviews. Cancer.2014 Jun;430-924827502
Genetic characteristics and pathogenic mechanisms of periodontal pathogens.Amano, A; Chen, C; Honma, K; Li, C; Settem, R P; Sharma, AAdvances in dental research2014 May15-2224736700
Water permeation drives tumor cell migration in confined microenvironments.Stroka, Kimberly M; Jiang, Hongyuan; Chen, Shih-Hsun; Tong, Ziqiu; Wirtz, Denis; Sun, Sean X; Konstantopoulos, KonstantinosCell2014 Apr 24611-2324726433
Atomic force microscopy-coupled microcoils for cellular-scale nuclear magnetic resonance spectroscopy.Mousoulis, Charilaos; Maleki, Teimour; Ziaie, Babak; Neu, Corey PApplied physics letters.2013 Apr 08;24719493
Universal artificial antigen presenting cells to selectively propagate T cells expressing chimeric antigen receptor independent of specificity.Rushworth, David; Jena, Bipulendu; Olivares, Simon; Maiti, Sourindra; Briggs, Neima; Somanchi, Srinivas; Dai, Jianliang; Lee, Dean; Cooper, Laurence J NJournal of immunotherapy (Hagerstown, Md. : 1997)2014 May204-1324714354
Mathematical approaches to modeling development and reprogramming.Morris, Rob; Sancho-Martinez, Ignacio; Sharpee, Tatyana O; Izpisua Belmonte, Juan CarlosProceedings of the National Academy of Sciences of the United States of America.2014 Apr 8;5076-8224706886
Local mechanical response of cells to the controlled rotation of magnetic nanorods.Castillo, Matias; Ebensperger, Roberto; Wirtz, Denis; Walczak, Magdalena; Hurtado, Daniel E; Celedon, AlfredoJournal of biomedical materials research. Part B, Applied biomaterials.2014 Nov;1779-8524700696
Visualizing and manipulating temporal signaling dynamics with fluorescence-based tools.Doupé, David P; Perrimon, NorbertScience signaling.2014 Apr 1;re124692594
Excess PLAC8 promotes an unconventional ERK2-dependent EMT in colon cancer.Li, Cunxi; Ma, Haiting; Wang, Yang; Cao, Zheng; Graves-Deal, Ramona; Powell, Anne E; Starchenko, Alina; Ayers, Gregory D; Washington, Mary Kay; Kamath, Vidya; Desai, Keyur; Gerdes, Michael J; Solnica-Krezel, Lila; Coffey, Robert JThe Journal of clinical investigation2014 Apr 1NULL24691442
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Targeted ablation of nesprin 1 and nesprin 2 from murine myocardium results in cardiomyopathy, altered nuclear morphology and inhibition of the biomechanical gene response.Banerjee, Indroneal; Zhang, Jianlin; Moore-Morris, Thomas; Pfeiffer, Emily; Buchholz, Kyle S; Liu, Ao; Ouyang, Kunfu; Stroud, Matthew J; Gerace, Larry; Evans, Sylvia M; McCulloch, Andrew; Chen, JuPLoS genetics.2014 Feb;e100411424586179
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Human heart rate: heritability of resting and stress values in twin pairs, and influence of genetic variation in the adrenergic pathway at a microribonucleic acid (microrna) motif in the 3'-UTR of cytochrome b561 [corrected].Zhang, Kuixing; Deacon, Dekker C; Rao, Fangwen; Schork, Andrew J; Fung, Maple M; Waalen, Jill; Schork, Nicholas J; Nievergelt, Caroline M; Chi, Neil C; O'Connor, Daniel TJournal of the American College of Cardiology.2014 Feb 4;358-6824140660
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Single cell spectroscopy: Noninvasive measures of small-scale structure and function.Mousoulis, Charilaos; Xu, Xin; Reiter, David A; Neu, Corey PMethods (San Diego, Calif.)2013 Jul 22NULL23886910
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In vivo robotics: the automation of neuroscience and other intact-system biological fields.Kodandaramaiah, Suhasa B; Boyden, Edward S; Forest, Craig RAnnals of the New York Academy of Sciences2013 Dec63-7123841584
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Antagonism between binding site affinity and conformational dynamics tunes alternative cis-interactions within Shp2.Sun, Jie; Lu, Shaoying; Ouyang, Mingxing; Lin, Li-Jung; Zhuo, Yue; Liu, Bo; Chien, Shu; Neel, Benjamin G; Wang, YingxiaoNature communications2013 Jun 24203723792876
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Manufacture of clinical-grade CD19-specific T cells stably expressing chimeric antigen receptor using Sleeping Beauty system and artificial antigen presenting cells.Singh, Harjeet; Figliola, Matthew J; Dawson, Margaret J; Olivares, Simon; Zhang, Ling; Yang, Ge; Maiti, Sourindra; Manuri, Pallavi; Senyukov, Vladimir; Jena, Bipulendu; Kebriaei, Partow; Champlin, Richard E; Huls, Helen; Cooper, Laurence J NPloS one2013e6413823741305
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The antagonistic roles of PDGF and integrin ýývýý3 in regulating ROS production at focal adhesions.Lin, Li-Jung; Grimme, Jill M; Sun, Jie; Lu, Shaoying; Gai, Lisa; Cropek, Donald M; Wang, YingxiaoBiomaterials2013 May3807-1523465490
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Quantitative high-throughput single-cell cytotoxicity assay for T cells.Liadi, Ivan; Roszik, Jason; Romain, Gabrielle; Cooper, Laurence J N; Varadarajan, NavinJournal of visualized experiments : JoVE2013e5005823407457
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High-throughput secretomic analysis of single cells to assess functional cellular heterogeneity.Lu, Yao; Chen, Jonathan J; Mu, Luye; Xue, Qiong; Wu, Yu; Wu, Pei-Hsun; Li, Jie; Vortmeyer, Alexander O; Miller-Jensen, Kathryn; Wirtz, Denis; Fan, RongAnalytical chemistry2013 Feb 192548-5623339603
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Comparative genomic hybridization and transcriptome analysis with a pan-genome microarray reveal distinctions between JP2 and non-JP2 genotypes of Aggregatibacter actinomycetemcomitans.Huang, Y; Kittichotirat, W; Mayer, M P A; Hall, R; Bumgarner, R; Chen, CMolecular oral microbiology2013 Feb17-Jan23194436
Beating in a dish: new hopes for cardiomyocyte regeneration.Gu, Ying; Yi, Fei; Liu, Guang-Hui; Izpisua Belmonte, Juan CarlosCell research.2013 Mar;314-623184058
Evolutionary conservation of Nkx2.5 autoregulation in the second heart field.Clark, Christopher D; Zhang, Boding; Lee, Benjamin; Evans, Samuel I; Lassar, Andrew B; Lee, Kyu-HoDevelopmental biology.2013 Feb 01;23165293
Characterization of the effects of an rpoC mutation that confers resistance to the Fst peptide toxin-antitoxin system toxin.Brinkman, Cassandra L; Bumgarner, Roger; Kittichotirat, Weerayuth; Dunman, Paul M; Kuechenmeister, Lisa J; Weaver, Keith EJournal of bacteriology2013 Jan156-6623104812
Generation of a drug-inducible reporter system to study cell reprogramming in human cells.Ruiz, Sergio; Panopoulos, Athanasia D; Montserrat, Nuria; Multon, Marie-Christine; Daury, Aurelie; Rocher, Corinne; Spanakis, Emmanuel; Batchelder, Erika M; Orsini, Cecile; Deleuze, Jean-Francois; Izpisua Belmonte, Juan CarlosThe Journal of biological chemistry.2012 Nov 23;40767-7823019325
Single-cell characterization of autotransporter-mediated Escherichia coli surface display of disulfide bond-containing proteins.Ramesh, Balakrishnan; Sendra, Victor G; Cirino, Patrick C; Varadarajan, NavinThe Journal of biological chemistry.2012 Nov 9;23019324
Identification of a specific reprogramming-associated epigenetic signature in human induced pluripotent stem cells.Ruiz, Sergio; Diep, Dinh; Gore, Athurva; Panopoulos, Athanasia D; Montserrat, Nuria; Plongthongkum, Nongluk; Kumar, Sachin; Fung, Ho-Lim; Giorgetti, Alessandra; Bilic, Josipa; Batchelder, Erika M; Zaehres, Holm; Kan, Natalia G; Schöler, Hans Robert; Mercola, Mark; Zhang, Kun; Izpisua Belmonte, Juan CarlosProceedings of the National Academy of Sciences of the United States of America.2012 Oct 02;22991473
Red-shifted fluorescent proteins monitor enzymatic activity in live HT-1080 cells with fluorescence lifetime imaging microscopy (FLIM).Eichorst, J P; Clegg, R M; Wang, YJournal of microscopy2012 Oct77-8922971220
The dawn of angiogenesis modeling: regenerating vasculature from human pluripotent stem cells.Yi, Fei; Qu, Jing; Liu, Guang-Hui; Izpisua Belmonte, Juan CarlosCell research.2013 Jan;5-Mar22964710
Elimination of dendritic spines with long-term memory is specific to active circuits.Sanders, Jeff; Cowansage, Kiriana; Baumgartel, Karsten; Mayford, MarkThe Journal of neuroscience : the official journal of the Society for Neuroscience2012 Sep 512570-822956846
Single-cell systems biology by super-resolution imaging and combinatorial labeling.Lubeck, Eric; Cai, LongNature methods2012 Jul743-822660740
Genome sequence of a serotype b non-JP2 aggregatibacter actinomycetemcomitans strain, ANH9381, from a periodontally healthy individual.Chen, Casey; Kittichotirat, Weerayuth; Chen, Weizhen; Downey, Jennifer S; Bumgarner, RogerJournal of bacteriology2012 Apr183722408240
Cut and paste: restoring cellular function by gene correction.Liu, Guang-Hui; Sancho-Martinez, Ignacio; Izpisua Belmonte, Juan CarlosCell research.2012 Feb;22143565
The metabolome of induced pluripotent stem cells reveals metabolic changes occurring in somatic cell reprogramming.Panopoulos, Athanasia D; Yanes, Oscar; Ruiz, Sergio; Kida, Yasuyuki S; Diep, Dinh; Tautenhahn, Ralf; Herrerias, Aida; Batchelder, Erika M; Plongthongkum, Nongluk; Lutz, Margaret; Berggren, W Travis; Zhang, Kun; Evans, Ronald M; Siuzdak, Gary; Izpisua BelmCell research.2012 Jan;168-7722064701
TACE/ADAM-17 phosphorylation by PKC-epsilon mediates premalignant changes in tobacco smoke-exposed lung cells.Lemjabbar-Alaoui, Hassan; Sidhu, Sukhvinder S; Mengistab, Aklilu; Gallup, Marianne; Basbaum, CarolPloS one.2011 Mar 15;21423656
Distinction between two populations of islet-1-positive cells in hearts of different murine strains.Khattar, Patricia; Friedrich, Felix W; Bonne, Gisèle; Carrier, Lucie; Eschenhagen, Thomas; Evans, Sylvia M; Schwartz, Ketty; Fiszman, Marc Y; Vilquin, Jean-ThomasStem cells and development.2011 06;20942609