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| Status |
Public on Mar 25, 2018 |
| Title |
OCEAN-C: mapping hubs of open chromatin interactions across the genome reveals gene regulatory networks |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
We develop a method called open chromatin enrichment and network Hi-C (OCEAN-C) for antibody-independent mapping of global open chromatin interactions. By integrating FAIRE-seq and Hi-C, OCEAN-C detects open chromatin interactions enriched by active cis-regulatory elements. We identify more than 10,000 hubs of open chromatin interactions (HOCIs) in human cells, which are mainly active promoters and enhancers bound by many DNA-binding proteins and form interaction networks crucial for gene transcription. In addition to identifying large-scale topological structures including topologically associated domains and A/B compartments, OCEAN-C can detect HOCI-mediated chromatin interactions that are strongly associated with gene expression, super-enhancers and broad H3K4me3 domains.
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| Overall design |
Analysis of open chromatin interactions and gene regulatory networks in 3 different cell types.
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| Contributor(s) |
Li T, Jia L |
| Citation(s) |
29690904 |
| Submission date |
Jul 05, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
lumeng Jia |
| E-mail(s) |
lumeng_j@pku.edu.cn
|
| Organization name |
Peking university
|
| Street address |
Yiheyuan road
|
| City |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
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| Platforms (1) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA393197 |
| SRA |
SRP111140 |
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