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| Status |
Public on Sep 14, 2016 |
| Title |
Capture-C reveals preformed chromatin interactions between HIF-binding sites and distant promoters |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
Hypoxia inducible factor (HIF) directs an extensive transcriptional cascade that transduces numerous adaptive responses to hypoxia. Pan-genomic analyses, using chromatin immunoprecipitation and transcript profiling, have revealed large numbers of HIF-binding sites that are generally associated with hypoxia-inducible transcripts, even over long chromosomal distances. However, these studies do not define the specific targets of HIF-binding sites and do not reveal how induction of HIF affects chromatin conformation over distantly connected functional elements. To address these questions we deployed a recently developed chromosome conformation assay that enables simultaneous high-resolution analyses from multiple viewpoints. These assays defined specific long-range interactions between intergenic HIF-binding regions and one or more promoters of hypoxia-inducible genes, revealing the existence of multiple enhancer-promoter, promoter-enhancer and enhancer-enhancer interactions.
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| Overall design |
We utilised Capture-C to study chromatin looping from distal HIF binding sites (enhancers) and the promoters of HIF regulated genes. Studying the dynamics in normoxia and hypoxia and across different cell types.
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| Contributor(s) |
Mole D, Platt J |
| Citation(s) |
27506891 |
| |
| Submission date |
Feb 19, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
James Platt |
| Organization name |
University of Oxford
|
| Street address |
Roosevelt Drive
|
| City |
Oxfors |
| ZIP/Postal code |
OX3 7BN |
| Country |
United Kingdom |
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| Platforms (2) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE78114 |
Capture-C reveals preformed chromatin interactions between HIF-binding sites and distant promoters. |
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| Relations |
| BioProject |
PRJNA312614 |
| SRA |
SRP070559 |
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