Regev, Aviv

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

Shekhar, K., Lapan, S. W., Whitney, I. E., Tran, N. M., Macosko, E. Z., Kowalczyk, M., Adiconis, X., Levin, J. Z., Nemesh, J., Goldman, M., et al. (2016) · Cell

Single-cell and spatial transcriptomicsRetinal Development and Disorders

Cited by 1,176

Induction and molecular signature of pathogenic TH17 cells

Lee, Y., Awasthi, A., Yosef, N., Quintana, F. J., Xiao, S., Peters, A., Wu, C., Kleinewietfeld, M., Kunder, S., Hafler, D. A., et al. (2012) · Nature Immunology

Psoriasis: Treatment and PathogenesisT-cell and B-cell Immunology

Cited by 1,174

High-definition spatial transcriptomics for in situ tissue profiling

Vickovic, S., Eraslan, G., Salmén, F., Klughammer, J., Stenbeck, L., Schapiro, D., Äijö, T., Bonneau, R., Bergenstråhle, L., Navarro, J. F., et al. (2019) · Nature Methods

Single-cell and spatial transcriptomicsGene expression and cancer classification

Cited by 1,150

Chromatin Potential Identified by Shared Single-Cell Profiling of RNA and Chromatin

Ma, S., Zhang, B., LaFave, L. M., Earl, A. S., Chiang, Z., Hu, Y., Ding, J., Brack, A., Kartha, V. K., Tay, T., et al. (2020) · Cell

Genomics and Chromatin DynamicsSingle-cell and spatial transcriptomics

Cited by 1,146

Landscape of X chromosome inactivation across human tissues

GTEx Consortium, Tukiainen, T., Villani, A.-C., Yen, A., Rivas, M. A., Marshall, J. L., Satija, R., Aguirre, M., Gauthier, L., Fleharty, M., et al. (2017) · Nature

Genetic and Clinical Aspects of Sex Determination and Chromosomal AbnormalitiesGenomics and Chromatin Dynamics

Cited by 1,138

CEL-seq2: sensitive highly-multiplexed single-cell RNA-Seq

Hashimshony, T., Senderovich, N., Avital, G., Klochendler, A., de Leeuw, Y., Anavy, L., Gennert, D., Li, S., Livak, K. J., Rozenblatt-Rosen, O., et al. (2016) · Genome Biology

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 1,125

Individual brain organoids reproducibly form cell diversity of the human cerebral cortex

Velasco, S., Kedaigle, A. J., Simmons, S. K., Nash, A., Rocha, M., Quadrato, G., Paulsen, B., Nguyen, L., Adiconis, X., Regev, A., et al. (2019) · Nature

Neurogenesis and neuroplasticity mechanismsPluripotent Stem Cells Research

Cited by 1,094

Massively parallel single-nucleus RNA-seq with DroNc-seq

Habib, N., Avraham-Davidi, I., Basu, A., Burks, T., Shekhar, K., Hofree, M., Choudhury, S. R., Aguet, F., Gelfand, E., Ardlie, K., et al. (2017) · Nature Methods

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 1,069

DroNc-Seq: Deciphering cell types in human archived brain tissues by massively-parallel single nucleus RNA-seq

Habib, N., Basu, A., Avraham-Davidi, I., Burks, T., Choudhury, S. R., Aguet, F., Gelfand, E., Ardlie, K., Weitz, D. A., Rozenblatt-Rosen, O., et al. (2017) · Nature Methods

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 1,069

Integrative molecular and clinical modeling of clinical outcomes to PD1 blockade in patients with metastatic melanoma

Liu, D., Schilling, B., Liu, D., Sucker, A., Livingstone, E., Jerby-Arnon, L., Zimmer, L., Gutzmer, R., Satzger, I., Loquai, C., et al. (2019) · Nature Medicine

Cancer Immunotherapy and BiomarkersCutaneous Melanoma Detection and Management

Cited by 1,039

Induction of pathogenic TH17 cells by inducible salt-sensing kinase SGK1

Wu, C., Yosef, N., Thalhamer, T., Zhu, C., Xiao, S., Kishi, Y., Regev, A., & Kuchroo, V. K. (2013) · Nature

Psoriasis: Treatment and PathogenesisT-cell and B-cell Immunology

Cited by 1,022

Disease-associated astrocytes in Alzheimer’s disease and aging

Habib, N., McCabe, C., Medina, S., Varshavsky, M., Kitsberg, D., Dvir-Szternfeld, R., Green, G., Dionne, D., Nguyen, L., Marshall, J. L., et al. (2020) · Nature Neuroscience

Alzheimer's disease research and treatmentsNeuroinflammation and Neurodegeneration Mechanisms

Cited by 1,009

Single-cell RNA-seq reveals dynamic paracrine control of cellular variation

Shalek, A. K., Satija, R., Shuga, J., Trombetta, J. J., Gennert, D., Lu, D., Chen, P., Gertner, R. S., Gaublomme, J. T., Yosef, N., et al. (2014) · Nature

Single-cell and spatial transcriptomicsGene Regulatory Network Analysis

Cited by 1,000

Densely Interconnected Transcriptional Circuits Control Cell States in Human Hematopoiesis

Novershtern, N., Subramanian, A., Lawton, L. N., Mak, R. H., Haining, W. N., McConkey, M. E., Habib, N., Yosef, N., Chang, C. Y., Shay, T., et al. (2011) · Cell

Genomics and Chromatin DynamicsGene Regulatory Network Analysis

Cited by 942

Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram

Biancalani, T., Scalia, G., Buffoni, L., Avasthi, R., Lu, Z., Sanger, A., Tokcan, N., Vanderburg, C. R., Segerstolpe, Å., Zhang, M., et al. (2021) · Nature Methods

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 931

Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis

Farrell, J. A., Wang, Y., Riesenfeld, S. J., Shekhar, K., Regev, A., & Schier, A. F. (2018) · Science

Single-cell and spatial transcriptomicsDevelopmental Biology and Gene Regulation

Cited by 876

Systematic comparison of single-cell and single-nucleus RNA-sequencing methods

Ding, J., Adiconis, X., Simmons, S. K., Kowalczyk, M. S., Hession, C. C., Marjanovic, N. D., Hughes, T. K., Wadsworth, M. H., Burks, T., Nguyen, L. T., et al. (2020) · Nature Biotechnology

Single-cell and spatial transcriptomicsGenomics and Phylogenetic Studies

Cited by 871

A single-cell atlas of human and mouse white adipose tissue

Emont, M. P., Jacobs, C., Essene, A. L., Pant, D., Tenen, D., Colleluori, G., Di Vincenzo, A., Jørgensen, A. M., Dashti, H., Stefek, A., et al. (2022) · Nature

Adipose Tissue and MetabolismSingle-cell and spatial transcriptomics

Cited by 840

Optimal-Transport Analysis of Single-Cell Gene Expression Identifies Developmental Trajectories in Reprogramming

Schiebinger, G., Shu, J., Tabaka, M., Cleary, B., Subramanian, V., Solomon, A., Gould, J., Liu, S., Lin, S., Berube, P., et al. (2019) · Cell

Single-cell and spatial transcriptomicsPluripotent Stem Cells Research

Cited by 829

Comparative cellular analysis of motor cortex in human, marmoset and mouse

Bakken, T. E., Jorstad, N. L., Hu, Q., Lake, B. B., Tian, W., Kalmbach, B. E., Crow, M., Hodge, R. D., Krienen, F. M., Sorensen, S. A., et al. (2021) · Nature

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

Cited by 812

Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse

Bakken, T. E., Jorstad, N. L., Hu, Q., Lake, B. B., Tian, W., Kalmbach, B. E., Crow, M., Hodge, R. D., Krienen, F. M., Sorensen, S. A., et al. (2020) · Nature

Single-cell and spatial transcriptomicsNeuroscience and Neuropharmacology Research

Cited by 809

Scaling single-cell genomics from phenomenology to mechanism

Tanay, A., & Regev, A. (2017) · Nature

Single-cell and spatial transcriptomicsGene Regulatory Network Analysis

Cited by 792

Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells

Kowalczyk, M. S., Tirosh, I., Heckl, D., Rao, T. N., Dixit, A., Haas, B. J., Schneider, R. K., Wagers, A. J., Ebert, B. L., & Regev, A. (2015) · Genome Research

Hematopoietic Stem Cell TransplantationSingle-cell and spatial transcriptomics

Cited by 778

Comprehensive comparative analysis of strand-specific RNA sequencing methods

Levin, J. Z., Yassour, M., Adiconis, X., Nusbaum, C., Thompson, D. A., Friedman, N., Gnirke, A., & Regev, A. (2010) · Nature Methods

Genomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

Cited by 753