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| Status |
Public on Aug 02, 2016 |
| Title |
In vitro cultured H7 human embryonic stem cells (WiCell) and H7-derived downstream early mesoderm progenitors |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
Stem-cell differentiation to desired lineages requires navigating alternating developmental paths that often lead to unwanted cell types. Hence, comprehensive developmental roadmaps are crucial to channel stem-cell differentiation toward desired fates. To this end, here, we map bifurcating lineage choices leading from pluripotency to 12 human mesodermal lineages, including bone, muscle, and heart. We defined the extrinsic signals controlling each binary lineage decision, enabling us to logically block differentiation toward unwanted fates and rapidly steer pluripotent stem cells toward 80%–99% pure human mesodermal lineages at most branchpoints. This strategy enabled the generation of human bone and heart progenitors that could engraft in respective in vivo models. Mapping stepwise chromatin and single-cell gene expression changes in mesoderm development uncovered somite segmentation, a previously unobservable human embryonic event transiently marked by HOPX expression. Collectively, this roadmap enables navigation of mesodermal development to produce transplantable human tissue progenitors and uncover developmental processes. doi:10.1016/j.cell.2016.06.011
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| Overall design |
BioProject: PRJNA319573, Study: SRP073808, Bulk and single-cell RNA-seq, and ATAC-seq of of H7 human embryonic stem cells (ESC) and in vitro derived 10 diffrerent mesoderm progenitors from H7-ESC
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| Contributor(s) |
Sinha R, Koh PW |
| Citation(s) |
27419872, 27996962 |
| BioProject |
PRJNA319573 |
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| Submission date |
Aug 01, 2016 |
| Last update date |
Jul 28, 2020 |
| Contact name |
Rahul Sinha |
| E-mail(s) |
rsinha76@gmail.com
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| Organization name |
Stanford University School of Medicine
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| Department |
ISCBRM
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| Lab |
Weissman
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| Street address |
265 Campus Drive
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (12)
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| Relations |
| SRA |
SRP073808 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE85066_RAW.tar |
30.9 Mb |
(http)(custom) |
TAR (of NARROWPEAK, TXT) |
| GSE85066_mergedPeaks_idr.narrowPeak.gz |
1.8 Mb |
(ftp)(http) |
NARROWPEAK |
| GSE85066_pvalOverlappingMergedPeaks_idr.txt.gz |
3.7 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
| Processed data provided as supplementary file |
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