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| Status |
Public on Jun 24, 2018 |
| Title |
Single-Cell RNA-Seq Reveals Dynamic Early Embryonic-like Programs during Chemical Reprogramming |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
We profile 36,199 single-cell transcriptomes at multiple timepoints throughout a highly efficient chemical reprogramming system using RNA-sequencing and reconstruct their progression trajectories. Through identifying sequential molecular events, we reveal that the dynamic early embryonic-like programs account for successful reprogramming from XEN-like state to pluripotency, including the transcriptomic signature of concomitant two-cell (2C) embryonic-like and early pluripotency program and the epigenetic signature of notable genome-wide DNA demethylation.
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| Overall design |
Single cell RNA-Seq, bulk RNA-Seq and whole-genome bisulfite sequencing (WGBS) analyse the molecular mechanism of highly efficient chemical reprogramming system.
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| Contributor(s) |
Zhao T, Fu Y, Zhu J, Liu Y, Zhang Q, Deng H |
| Citation |
Ting Zhao, Yao Fu, Jialiang Zhu, Yifang Liu, Qian Zhang, Zexuan Yi, Shi Chen, Zhonggang Jiao, Xiaochan Xu, Junquan Xu, Shuguang Duo, Yun Bai, Chao Tang, Cheng Li, Hongkui Deng. Single-Cell RNA-Seq Reveals Dynamic Early Embryonic-like Programs during Chemical Reprogramming. Cell Stem Cell 2018;23:1-15. doi:10.1016/j.stem.2018.05.025
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| Submission date |
May 27, 2018 |
| Last update date |
Mar 01, 2019 |
| Contact name |
Yifang Liu |
| E-mail(s) |
liuyifang3000@gmail.com
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| Organization name |
Peking University
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| Street address |
Haidian District
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| City |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
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| Platforms (1) |
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| Samples (30)
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| Relations |
| BioProject |
PRJNA473270 |
| SRA |
SRP149052 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE114952_AGG.tar.gz |
357.0 Mb |
(ftp)(http) |
TAR |
| GSE114952_ESCs.tar.gz |
110.9 Mb |
(ftp)(http) |
TAR |
| GSE114952_RAW.tar |
1009.5 Mb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE114952_RNA-Seq_FPKM.xlsx |
4.9 Mb |
(ftp)(http) |
XLSX |
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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