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| Status |
Public on Oct 05, 2020 |
| Title |
Transcription-driven cohesin accumulation is associated with secretory phenotype of senescence [ChIP-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Senescence is a stable form of cell cycle arrest that is triggered in response to various pathophysiological stimuli. The three-dimensional structure of senescent cells has been previously characterised, mostly in terms of macro-domains or changes between large heterochromatic regions. In the present body of work, using a combination of HiC and targetted Capture Hi-C, we aimed to investigate the association between gene expression and local chromatin structure in senescence, particularly focusing on enhancer-promoter (EP) interactions. We show that many EP contacts are rewired in RAS-induced Senescence compared to ‘normal’, growing cells and that these are associated with cohesin binding changes and possible loop re-organisation. The genes affected by altered chromatin interactions correspond to the two main axes of senescence gene regulation: cell cycle and inflammation. Our findings are potentially relevant during ageing and in cancers with cohesin mutations, where cell cycle and inflammation are also deregulated.
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| |
|
| Overall design |
ChIP-seq of CTCF and cohesin components RAD21 and SMC3 in growing and (RAS-induced) senescent IMR90 fibroblasts
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| |
|
| Contributor(s) |
Olan I, Parry A |
| Citation(s) |
33247104 |
| Submission date |
Jul 30, 2019 |
| Last update date |
Jan 04, 2021 |
| Contact name |
Ioana Olan |
| E-mail(s) |
Ioana.Olan@cruk.cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Department |
Cancer Research UK Cambridge Institute
|
| Lab |
Narita Lab
|
| Street address |
Robinson Way
|
| City |
Cambridge |
| State/province |
Cambridgeshire |
| ZIP/Postal code |
CB2 0RE |
| Country |
United Kingdom |
| |
|
| Platforms (3) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
|
| Samples (65)
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| This SubSeries is part of SuperSeries: |
| GSE135093 |
Transcription-driven cohesin accumulation is associated with secretory phenotype of senescence |
|
| Relations |
| BioProject |
PRJNA557423 |
| SRA |
SRP216830 |
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