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Series GSE156793 Query DataSets for GSE156793
Status Public on Nov 01, 2020
Title A human cell atlas of fetal gene expression
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary The gene expression program underlying the specification of human cell types is of fundamental interest. We generated human cell atlases of gene expression and chromatin accessibility in fetal tissues. For gene expression, we applied three-level combinatorial indexing to >110 samples representing 15 organs, profiling ~4 million single cells. We leveraged the literature and other atlases to identify and annotate hundreds of cell types and subtypes, both within and across tissues. Our analyses focus on organ-specific specializations of broadly distributed cell types (e.g. blood, endothelial, epithelial), sites of fetal erythropoiesis (which surprisingly included the adrenal gland) and integration with mouse developmental atlases (e.g. conserved specification of blood cells). These data comprise a rich resource for the exploration of in vivo human gene expression in diverse tissues and cell types.
Overall design single cell RNA-seq profiling of human fetal tissues

***RNA-Seq raw data is to be made available through dbGaP (controlled access) due to privacy concerns:
Contributor(s) Cao J, O'Day DR, Pliner HA, Kingsley P, Deng M, Daza RM, Zager MA, Kimberly A, Blecher R, Zhang F, O'Day DR, Spielmann M, Palis J, Doherty D, Steemers FJ, Glass IA, Trapnell C, Shendure J
Citation(s) 33184181
Submission date Aug 24, 2020
Last update date Aug 26, 2021
Contact name Junyue Cao
Organization name University of Washington
Department Department of Genome Sciences
Lab Shendure lab
Street address Foege Building S-210, 3720 15th Ave NE
City Seattle
State/province WA
ZIP/Postal code 98195-5065
Country USA
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (121)
GSM4744552 H26350_adrenal_sciRNA
GSM4744553 H26350_lung_sciRNA
GSM4744554 H26350_pancreas_sciRNA
BioProject PRJNA659041

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE156793_S1_metadata_cells.txt.gz 333.0 Mb (ftp)(http) TXT
GSE156793_S2_Metadata_genes.txt.gz 564.7 Kb (ftp)(http) TXT
GSE156793_S3_gene_count.loom.gz 12.1 Gb (ftp)(http) LOOM
GSE156793_S4_gene_expression_tissue.txt.gz 5.5 Mb (ftp)(http) TXT
GSE156793_S5_gene_fraction_tissue.txt.gz 3.9 Mb (ftp)(http) TXT
GSE156793_S6_gene_expression_celltype.txt.gz 33.1 Mb (ftp)(http) TXT
GSE156793_S7_gene_fraction_celltype.txt.gz 25.5 Mb (ftp)(http) TXT
GSE156793_S8_DE_gene_cells.csv.gz 13.3 Mb (ftp)(http) CSV
Raw data not provided for this record
Processed data are available on Series record

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