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Series GSE107727 Query DataSets for GSE107727
Status Public on Mar 29, 2018
Title A single cell hematopoietic landscape resolves 8 lineage trajectories and defects in Kit mutant mice
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Haematopoietic stem and progenitor cells (HSPCs) maintain the adult blood system and their dysregulation causes a multitude of diseases. However, the differentiation journeys towards specific haematopoietic lineages remain ill defined, and system-wide disease interpretation remains challenging. Here, we have profiled 44,802 mouse bone marrow HSPCs using single cell RNA-Sequencing to provide a comprehensive transcriptional landscape with entry points to eight different blood lineages. We identified a common basophil/mast cell bone marrow progenitor, and characterised its molecular profile at the single cell level. Transcriptome sequencing of 13,815 HSPCs from the c-kit mutant W41 mouse model revealed the lack of a distinct mast cell lineage entry point, together with global shifts in cell type abundance. Proliferative defects were accompanied by reduced Myc expression. Compensatory processes included upreglation of the integrated stress response pathway and downregulation of pro-apoptotic gene expression in erythroid progenitors, thus providing a template of how single cell transcriptomics can reveal qualitative, quantitative and molecular aspects of mutant phenotypes.
 
Overall design To determine the transcriptional landscape of mouse HSPCs in normal and perturbed haematopoiesis.
 
Contributor(s) Hannah R
Citation(s) 29588278
Submission date Dec 05, 2017
Last update date May 15, 2019
Contact name Rebecca Hannah
E-mail(s) rlh60@cam.ac.uk
Organization name University of Cambridge
Street address Cambridge Institute for Medical Research, University of Cambridge, Cambridge Biomedical Campus, Wellcome Trust / MRC Building, Hills Road
City Cambridge
ZIP/Postal code CB2 0XY
Country United Kingdom
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (8)
GSM2877127 SIGAB1
GSM2877128 SIGAC1
GSM2877129 SIGAD1
Relations
BioProject PRJNA421199
SRA SRP126188

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
GSE107727_RAW.tar 165.9 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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