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| Status |
Public on Jun 27, 2014 |
| Title |
Long-range chromatin interactions in mouse embryonic stem cells identified by ChIA-PET [ChIA-PET] |
| Organism |
Mus musculus |
| Experiment type |
Other
|
| Summary |
The pluripotent state of embryonic stem cells (ESCs) is produced by active transcription of cell identity genes and repression of genes encoding lineage-specifying developmental regulators. Here we use large ESC cohesin ChIA-PET datasets and other genomic data to identify the local chromosomal structures at both active and repressed genes across the genome. The results show that super-enhancer driven cell identity genes generally occur within large loops that are connected through CTCF-CTCF interaction sites occupied by cohesin.
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| Overall design |
Smc1 ChIA-PET data from wild type murine embryonic stem cells V6.5 were generated by deep sequencing using Illumina Hi-Seq 2000.
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| Contributor(s) |
Dowen J, Fan Z, Abraham BJ, Zhang L, Hnisz D, Lee TI, Ren G, Zhao K, Young RA |
| Citation(s) |
25303531 |
| |
| Submission date |
May 22, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Richard A Young |
| E-mail(s) |
young_computation@wi.mit.edu
|
| Phone |
617-258-5219
|
| Organization name |
Whitehead Institute for Biomedical Research
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| Lab |
Young Lab
|
| Street address |
9 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE57913 |
Long-range chromatin interactions in mouse embryonic stem cells identified by ChIA-PET |
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| Relations |
| BioProject |
PRJNA248406 |
| SRA |
SRP042202 |
