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Series GSE100618 Query DataSets for GSE100618
Status Public on Nov 11, 2017
Title Single Cell RNA sequencing analysis of human haemopoietic lympho-myeloid progenitor populations (LMPP, MLP and GMP)
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We performed single cell RNA sequencing of human haemopoietic lympho-myeloid progenitors with the aim to separate functionally and transcriptionally distinct progenitors within the heterogeneous GMP, LMPP and MLP populations. We performed RNA sequencing in a total of 415 single cells. From donors 1 (CB369) and 2 (CB431), 163/166 and 157/249 cells passed quality control.We further analysed the 320 single cells that passed quality control from two different donors (157 and 163 from each donor; 91 LMPP, 110 MLP and 119 GMP). We performed clustering using Seurat package, which identified 3 clusters of cells. We identified genes that were differentially expressed among cells of the different clusters. The majority of the cells in cluster 1 were MLP, the majority of cluster 3 were GMP while cluster comprised of LMPP and GMP cells. Cluster 1 showed high expression of lymphoid-affiliated genes. Conversely, cluster 3 showed increased expression of myeloid genes, while cluster 2 showed a mixed transcriptional signature. PCA analysis revealed a transcriptional continuum of LMPP, MLP and GMP populations.
Overall design Transcriptional heterogeneity of LMPP, MLP and GMP human lymphomyeloid progenitors at the single cell level.
Contributor(s) Diamanti E, Hamey F, Karamitros D, Stoilova B
Citation(s) 29167569
Submission date Jun 28, 2017
Last update date Mar 21, 2019
Contact name Evangelia Diamanti
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)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (420)
GSM2688979 P2_A10_GMP
GSM2688980 P2_A11_GMP
GSM2688981 P2_A12_GMP
BioProject PRJNA392305
SRA SRP110699

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
GSE100618_HTSeq_counts.txt.gz 3.7 Mb (ftp)(http) TXT
Raw data are available in SRA
Processed data is available on Series record

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