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Series GSE81682 Query DataSets for GSE81682
Status Public on Jul 04, 2016
Title The transcriptional landscape of mouse blood stem/progenitor cell transitions at single cell resolution
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Current gene-expression databases for the haematopoietic system provide information on gene expression profiles present in bulk populations. Although informative, these studies lack the resolution that can be gained at a single-cell level. In particular, population-average data assumes homogeneity within the population and may as such obscure the ability to detect the heterogeneity of decision-making processes in individual cells. Here we report 1656 single cell transcriptomes analysed by single-cell RNA sequencing. Cells were FACS sorted on broad gates encompassing haematopoietic stem and progenitor populations (HSPCs), with index sorting data collected to permit retrospective identification of populations by surface marker expression. Our dataset thus represents the gene expression landscape of HSPCs at single-cell resolution, capturing the heterogeneity in and between cell populations. Pseudotime analysis visualized haematopoietic stem (HSC) to progenitor transitions, identified HSC as well as lineage-specific transcriptional programs, and also highlighted putative lineage branching points. To provide access to the wider scientific community, a user-friendly website was developed with intuitive search and display functionality.
 
Overall design Single cell RNA sequencing of haematopoeitic stem and progenitor cells
 
Contributor(s) Nestorowa S, Wilson N, Kent D, Hamey F, Diamanti E
Citation(s) 27365425
Submission date May 20, 2016
Last update date Mar 21, 2019
Contact name Evangelia Diamanti
E-mail ed347@cam.ac.uk
Phone 01223 62317
Organization name University of Cambridge
Department Haematology
Lab Gottgens
Street address Wellcome Trust / MRC Building, Hills Road
City Cambridge
ZIP/Postal code CB2 0XY
Country United Kingdom
 
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (3840)
GSM2166421 Haematopoietic stem cell/multipotent progenitor HSPC_001
GSM2166422 Haematopoietic stem cell/multipotent progenitor HSPC_002
GSM2166423 Haematopoietic stem cell/multipotent progenitor HSPC_003
Relations
BioProject PRJNA322317
SRA SRP075481

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
GSE81682_HTSeq_counts.txt.gz 28.8 Mb (ftp)(http) TXT
Raw data are available in SRA
Processed data is available on Series record

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