Single Cell Transcriptome Datasets

Dataset Accession Number SRA Accession Number Dataset Title Organism Dataset Provider Cell Count
DRA001287 DRP001358 Single-cell analysis of lung adenocarcinoma cell lines reveals diverse expression patterns of individual cells invoked by a molecular target drug treatment. Homo sapiens Laboratory of Functional Genomics, Department of Medical Genome Sciences, Graduate School of Frontier Sciences, The University of Tokyo 337
DRA002399 DRP002435 Single-cell RNA-seq analysis of the cell cycle. Homo sapiens RIKEN_CLST_DGT 472
DRA002730 DRP002586 Single cell analysis of lung adenocarcinoma cell lines and the response to an anti-cancer drug stimulation. Homo sapiens Laboratory of Functional Genomics, Department of Medical Genome Sciences, Graduate School of Frontier Sciences, The University of Tokyo 255
E-MTAB-2512 ERP005640 Single-Cell RNA Sequencing Reveals T Helper Cells Synthesizing Steroids De Novo to Contribute to Immune Homeostasis Mus musculus EMBL-EBI 96
E-MTAB-2600 ERP003293 Single cell mRNA -sequencing reveals cell-to-cell variation in three mouse ES cell culture conditions Mus musculus EMBL-EBI 869
E-MTAB-2805 ERP006670 Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells Mus musculus EMBL Wellcome Trust Genome Campus 288
E-MTAB-3346 ERP009633 Single-cell transcriptome analysis reveals coordinated ectopic gene-expression patterns in medullary thymic epithelial cells. Mus musculus EMBL Heidelberg 341
E-MTAB-3543 ERP010398 Th2 differentiation in a time course experiment and at single generation resolution. Mus musculus EMBL-EBI 20
E-MTAB-3857 ERP013319 T cell fate and clonality inference from single-cell transcriptomes. Mus musculus EMBL-EBI 272
E-MTAB-3929 ERP012552 Single-cell RNA-seq reveal lineage formation and X-chromosome dosage compensation in human preimplantation embryos. Homo sapiens Karolinska Institutet 1529
E-MTAB-4026 ERP010821 Single-cell RNA sequencing of mouse embryos with Tal1 (Scl) knockout. Mus musculus EMBL-EBI: The University of Cambridge 768
E-MTAB-4079 ERP013381 Mouse embryonic RNA-seq. Mus musculus EMBL-EBI: The University of Cambridge 1205
E-MTAB-4619 ERP015011 Single CD4+ cells after Nippostrongylus brasiliensis infection. Mus musculus EMBL-EBI 287
E-MTAB-5060 ERP017123 Whole-islet RNA-sequencing analysis of human pancreas from healthy individuals and type 2 diabetes patients. Homo sapiens Karolinska Institutet 7
E-MTAB-5061 ERP017126 Single-cell RNA-seq analysis of human pancreas from healthy individuals and type 2 diabetes patients. Homo sapiens Karolinska Institutet 3514
GSE29087 SRP006834 Characterization of the single-cell (ES and MEF) transcriptional landscape by highly multiplex RNA-Seq. Mus musculus Karolinska Institutet 480
GSE36552 SRP011546 Initiation of a conserved trophectoderm program in human, cow and mouse embryos. Homo sapiens Peking University 124
GSE38495 SRP014428 Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells. Mus musculus and Homo sapiens Karolinska Institutet 121
GSE41265 SRP015959 Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells. Mus musculus New York Genome Center 68
GSE42268 SRP017173 Quartz-Seq: a highly reproducible and sensitive single-cell RNA sequencing method, reveals non-genetic gene-expression heterogeneity. Mus musculus RIKEN 77
GSE45719 SRP020490 Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells. Mus musculus Karolinska Institutet 317
GSE46980 SRP022764 Quantitative single-cell RNA-seq with unique molecular identifiers. Mus musculus Karolinska Institutet 288
GSE48968 SRP027537 Single-cell RNA-seq reveals dynamic paracrine control of cellular variation. Mus musculus New York Genome Center 4894
GSE51254 SRP030617 Quantitative assessment of single-cell RNA-sequencing methods. Homo sapiens Stanford University 109
GSE52529 SRP033135 The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells. Homo sapiens Harvard University 372
GSE53386 SRP034543 Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos. Mus musculus and Homo sapiens Peking University 116
GSE54695 SRP036633 Validation of noise models for single-cell transcriptomics. Mus musculus Max Planck Institute of Immunobiology and Epigenetics 16
GSE56638 SRP041119 Deep sequencing reveals cell-type-specific patterns of single-cell transcriptome variation. Mus musculus The University of Pennsylvania 121
GSE57872 SRP042161 Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma. Homo sapiens Massachusetts General Hospital 875
GSE59114 SRP044256 Single-cell RNA-seq reveals changes in cell cycle and differentiation programs upon aging of hematopoietic stem cells. Mus musculus Broad Institute 2128
GSE59739 SRP044898 Unbiased classification of sensory neuron types by large-scale single-cell RNA sequencing. Mus musculus Karolinska Institutet 2400
GSE60361 SRP045452 A comparative strategy for single-nucleus and single-cell transcriptomes confirms accuracy in predicted cell-type expression from nuclear RNA. Mus musculus Karolinska Institutet 3492
GSE63576 SRP050181 Somatosensory neuron types identified by high-coverage single-cell RNA-sequencing and functional heterogeneity. Mus musculus Shanghai Institute for Biological Sciences 209
GSE64016 SRP050992 Oscope identifies oscillatory genes in unsynchronized single-cell RNA-seq experiments. Homo sapiens Morgridge Institute for Research 460
GSE65360 SRP052977 Single-cell chromatin accessibility reveals principles of regulatory variation. Mus musculus and Homo sapiens Broad Institute 1920
GSE67310 SRP056585 Dissecting direct reprogramming from fibroblast to neuron using single-cell RNA-seq. Mus musculus Stanford University 405
GSE68981 SRP058443 Single cell transcriptomics reveals unanticipated features of early hematopoietic precursors. Mus musculus Yale University 519
GSE69405 SRP059035 Single-cell mRNA sequencing identifies subclonal heterogeneity in anti-cancer drug responses of lung adenocarcinoma cells. Homo sapiens Samsung Medical Center: Samsung Genome Institute 201
GSE70151 SRP059775 Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets. Homo sapiens Harvard Medical School 192
GSE70245 SRP059903 Single-cell analysis of mixed-lineage states leading to a binary cell fate choice. Mus musculus Cincinnati Childrens Hospital Medical Center 675
GSE70580 SRP060416 The heterogeneity of human CD127(+) innate lymphoid cells revealed by single-cell RNA sequencing. Homo sapiens Uppsala University 648
GSE70657 SRP060557 Single-cell RNA sequencing reveals molecular and functional platelet bias of aged haematopoietic stem cells. Mus musculus Weatheral Institute of Molecular Medicine 135
GSE70798 SRP060883 Aire controls gene expression in the thymic epithelium with ordered stochasticity. Mus musculus Harvard Medical School 310
GSE71453 SRP061708 Single-cell RNA-seq reveals distinct injury responses in different types of DRG sensory neurons. Mus musculus University of California Los Angeles 123
GSE71485 SRP061746 Single-Cell RNA-Seq with Waterfall Reveals Molecular Cascades underlying Adult Neurogenesis. Mus musculus Johns Hopkins University 173
GSE71585 SRP061902 Adult mouse cortical cell taxonomy revealed by single cell transcriptomics. Mus musculus Allen Institute for Brain Science 1809
GSE73121 SRP063840 Application of single-cell RNA sequencing in optimizing a combinatorial therapeutic strategy in metastatic renal cell carcinoma. Homo sapiens Samsung Medical Center: Samsung Genome Institute 121
GSE73727 SRP064464 Artemisinins Target GABA A Receptor Signaling and Impair alpha Cell Identity. Homo sapiens Austrian Academy of Sciences: CeMM Research Center for Molecular Medicine 72
GSE74155 SRP064979 Single-cell analyses of X Chromosome inactivation dynamics and pluripotency during differentiation. Mus musculus Karolinska Institutet 617
GSE74672 SRP065796 Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes. Mus musculus Karolinska Institutet 3077
GSE74833 SRP066311 Simulating multiple faceted variability in single cell RNA sequencing. Mus musculus EECS-UC Berkeley 768
GSE75330 SRP066613 Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system. Mus musculus Karolinska Institutet 6283
GSE75386 SRP068021 Single-cell RNAseq reveals cell adhesion molecule profiles in electrophysiologically defined neurons. Mus musculus Stanford University 108
GSE75413 SRP066675 Single-cell transcriptomics reveals receptor transformations during olfactory neurogenesis. Mus musculus Fred Hutchinson Cancer Research Centre 93
GSE75659 SRP066963 Analysis of allelic expression patterns in clonal somatic cells by single-cell RNA-seq. Mus musculus and Homo sapiens Karolinska Institutet 1318
GSE75748 SRP067036 Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm. Homo sapiens Morgridge Institute for Research 1776
GSE76381 SRP067844 Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells. Mus musculus and Homo sapiens Karolinska Institutet 6665
GSE77029 SRP068673 Distinct myeloid progenitor-differentiation pathways identified through single-cell RNA sequencing. Mus musculus Weatheral Institute of Molecular Medicine 64
GSE77067 SRP068706 Nuclear RNA-seq of single neurons reveals molecular signatures of activation. Mus musculus The Salk Institute for Biological Studies 201
GSE77980 SRP070425 Use of the Fluidigm C1 platform for RNA sequencing of single mouse pancreatic islet cells. Mus musculus Regeneron Pharmaceuticals Inc. 622
GSE78779 SRP070989 CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq. Mus musculus Technion - Israel Institute of Technology 188
GSE78845 SRP071085 Visceral motor neuron diversity delineates a cellular basis for nipple- and pilo-erection muscle control. Mus musculus Karolinska Institutet 312
GSE81682 SRP075481 A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation. Mus musculus The University of Cambridge 3840
GSE86042 SRP082573 A Distinct Gene Module for Dysfunction Uncoupled from Activation in Tumor-Infiltrating T Cells. Mus musculus Broad Institute 1604
PRJEB8994 ERP010048 Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development. Homo sapiens EMBL-EBI 372