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| Status |
Public on Dec 06, 2017 |
| Title |
Molecular and Functional Resemblance of Terminally Differentiated Cells Derived from Isogenic Human iPSCs and Somatic Cell Nuclear Transfer Derived ESCs |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
|
| Summary |
Here we performed genome-wide RNA-seq and Reduced Representation Bisulfite Sequencing (RRBS-seq) in isogenic human induced pluripotent stem cells (iPSCs) and somatic cell nuclear transfer-derived embryonic stem cells (nt-ESCs), genetically matched in vitro fertilization-derived ESCs (IVF-ESCs), and their respective differentiated cells (cardiomyocytes and endothelial cells). We generated the transcriptome and DNA methylome map in human pluripotent stem cells and their differentiated cells with single-nucleotide resolution. We compared the genetic (genetic makeup) and epigenetic (reprogramming approach) influence on the gene expression and DNA methylation profiles and found that genetic composition is the major contributor of the transcriptional and epigenetic variances observed in the undifferentiated and differentiated cells originated from different reprogramming mechanisms.
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| |
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| Overall design |
RNA-seq and RRBS-seq of 6 cell lines
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| |
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| Contributor(s) |
Zhao M, Shao N, Snyder M, Wu J |
| Citation(s) |
29203658 |
| |
| Submission date |
Jan 30, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Joseph Wu |
| Organization name |
Stanford University School of Medicine
|
| Street address |
Stanford University School of Medicine
|
| City |
Stanford |
| State/province |
Carlifornia |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL17301 |
Ion Torrent PGM (Homo sapiens) |
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| Samples (54)
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| Relations |
| BioProject |
PRJNA369215 |
| SRA |
SRP098560 |
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