|
| Status |
Public on Jun 23, 2011 |
| Title |
CTCF-Mediated Functional Chromatin Interactome in Pluripotent Cells |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Other
|
| Summary |
We performed Chromatin Interaction Analysis by Paired-End-Tag sequencing to elucidate CTCF-mediated long range interactions. 1,480 cis and 336 trans interacting loci were identified with high reproducibility. Associating these chromatin interaction loci with histone marks, RNA Pol II, p300 and Lamin B genome wide profiles, we uncover five distinct chromatin domains that suggest potential new models of CTCF function in chromatin organization and transcriptional control. Specifically, CTCF interactions demarcate chromatin-nuclear membrane attachments and may influence proper gene expression through extensive crosstalk between promoters and regulatory elements.
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| |
|
| Overall design |
Chromatin interaction analysis coupled with Pair End Tags of CTCF: ChIP using anti CTCF antibody, followed by close proximity ligations. ChIP-Seq was used map RNA Pol II, p300, Lamin B genome wide profiles
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| |
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| Contributor(s) |
Handoko L, Xu H, Li G, Ruan Y, Wei C |
| Citation(s) |
21685913 |
| Submission date |
Mar 29, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Lusy Handoko |
| Organization name |
Genome Institute of Singapore
|
| Street address |
60 Biopolis street 02-01
|
| City |
Singapore |
| ZIP/Postal code |
138672 |
| Country |
Singapore |
| |
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| Platforms (1) |
| GPL9250 |
Illumina Genome Analyzer II (Mus musculus) |
|
| Samples (8)
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|
| Relations |
| SRA |
SRP006311 |
| BioProject |
PRJNA139577 |
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