Please note that we have stopped the regular imports of Gene Expression Omnibus (GEO) data into ArrayExpress. This may not be the latest version of this experiment.

E-GEOD-81682 - The transcriptional landscape of mouse blood stem/progenitor cell transitions at single cell resolution

Status
Released on 4 July 2016, last updated on 10 July 2016
Organism
Mus musculus
Samples (3840)
Protocols (2)
Description
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. Single cell RNA sequencing of haematopoeitic stem and progenitor cells
Experiment type
RNA-seq of coding RNA 
Contacts
Evangelia Diamanti <ed347@cam.ac.uk>, David Kent, Fiona Hamey, Nicola Wilson, Sonia Nestorowa
Citation
A single cell resolution map of mouse haematopoietic stem and progenitor cell differentiation. Nestorowa S, Hamey FK, Pijuan Sala B, Diamanti E, Shepherd M, Laurenti E, Wilson NK, Kent DG, G�ttgens B. , PMID:27365425
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-81682.idf.txt
Sample and data relationshipE-GEOD-81682.sdrf.txt
Additional data (1)E-GEOD-81682.additional.1.zip
Links