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Series GSE131736 Query DataSets for GSE131736
Status Public on Jun 10, 2019
Title Transcriptional dynamics of pluripotent stem cell derived endothelial cell differentiation revealed by single cell RNA-Seq.
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Aims: Pluripotent stem cell-derived endothelial cell products possess therapeutic potential in ischemic vascular disease. However, the factors that drive endothelial differentiation from pluripotency and cellular specification are largely unknown. The aims of this study were to use single cell RNA sequencing (scRNA-seq) to map the transcriptional landscape and cellular dynamics of directed differentiation of human embryonic stem cell-derived endothelial cells (hESC-EC), and to compare these cells to mature endothelial cells from diverse vascular beds.Methods and Results: A highly efficient directed 8-day differentiation protocol was used to generate a hESC-derived endothelial cell product (hESC-ECP), in which 66% of cells coexpressed CD31 and CD144. We observed largely homogeneous hESC and mesodermal populations at days 0 and 4 respectively, followed by a rapid emergence of distinct endothelial and mesenchymal populations. Pseudotime trajectory identified transcriptional signatures of endothelial commitment and maturation during the differentiation process. Concordance in transcriptional signatures was verified by scRNA-seq analysis using both a second hESC line RC11, and an alternative hESC-EC differentiation protocol. In total 105,727 cells were subjected to scRNA-seq analysis. Global transcriptional comparison revealed a transcriptional architecture of hESC-EC that differs from freshly isolated and cultured human endothelial cells and from organ-specific endothelial cells. Conclusions: A transcriptional bifurcation into endothelial and mesenchymal lineages was identified, as well as novel transcriptional signatures underpinning commitment and maturation. The transcriptional architecture of hESC-ECP was distinct from mature and foetal human EC.
Overall design Characterisation of the differentiation of human embryonic stem cell derived endothelial cells using 2 different hESC lines and 2 differentiaton protocols.
Contributor(s) McCracken IR, Taylor RS, Kok FO, De La Cuesta F, Dobie R, Henderson BE, Mountford JC, Caudrillier A, Henderson NC, Ponting CP, Baker AH
Citation(s) 31242503
Submission date May 24, 2019
Last update date Jul 17, 2019
Contact name Ian R McCracken
Organization name University of Edinburgh
Department Centre for Cardiovascular Science
Street address 47 Little France Crescent
City Edinburgh
ZIP/Postal code EH16 4TJ
Country United Kingdom
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (16)
GSM3814885 10X_day_0_H9
GSM3814886 10X_day_4_H9
GSM3814887 10X_day_6_H9
BioProject PRJNA544617
SRA SRP199411

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Supplementary file Size Download File type/resource
GSE131736_RAW.tar 625.4 Mb (http)(custom) TAR (of H5)
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Raw data are available in SRA
Processed data provided as supplementary file

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