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Series GSE94992 Query DataSets for GSE94992
Status Public on May 03, 2017
Title The cohesin release factor WAPL restricts chromatin loop extension. [ChIP-Seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The spatial organization of chromosomes influences many nuclear processes including gene expression. The cohesin complex shapes the 3D genome by looping together CTCF sites along chromosomes. We show here that chromatin loop size can be increased, and that the duration with which cohesin embraces DNA determines the degree to which loops are enlarged. Cohesin’s DNA release factor WAPL restricts the degree of this loop extension and also prevents looping between incorrectly oriented CTCF sites. We reveal that the SCC2/SCC4 complex promotes the extension of chromatin loops and the formation of topologically associated domains (TADs). Our data support the model that cohesin structures chromosomes through the processive enlargement of loops and that TADs reflect polyclonal collections of loops in the making. Finally, we find that whereas cohesin promotes chromosomal looping, it rather limits nuclear compartmentalization. We conclude that the balanced activity of SCC2/SCC4 and WAPL enables cohesin to correctly structure chromosomes.
 
Overall design ChIPseq for CTCF and SMC1 was performed in control, ΔWAPL HAP1 , ΔSCC4 and ΔWAPL/ΔSCC4cells.
 
Contributor(s) van der Weide RH, de Wit E
Citation(s) 28475897
Submission date Feb 16, 2017
Last update date May 15, 2019
Contact name Robin H. van der Weide
Organization name Netherlands Cancer Institute
Department Division Of Gene Regulation
Lab de Wit Lab
Street address Plesmanlaan 121
City Amsterdam
State/province Noord-Holland
ZIP/Postal code 1066 CX
Country Netherlands
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (12)
GSM2493874 Hap1 IgG ChIPseq
GSM2493875 WaplKO_3.3 IgG ChIPseq
GSM2493876 SCC4KO IgG ChIPseq
This SubSeries is part of SuperSeries:
GSE95015 The cohesin release factor WAPL restricts chromatin loop extension.
Relations
BioProject PRJNA375742
SRA SRP100152

Download family Format
SOFT formatted family file(s) SOFTHelp
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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE94992_RAW.tar 7.2 Mb (http)(custom) TAR (of NARROWPEAK)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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