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Series GSE96692 Query DataSets for GSE96692
Status Public on Aug 30, 2017
Title Loss of CTCF reveals basic properties of post-mitotic epigenomes and induces heart failure [HiC-seq]
Organism Mus musculus
Experiment type Other
Summary Understanding the principles of endogenous chromatin structure has key implications for epigenetic therapy. To determine the mechanisms of genome structure-function in post-mitotic cells, genome-wide chromatin conformation capture was performed in cardiac myocytes, a non-dividing, differentiated cell responsible for cardiac contraction. Cardiac-specific CTCF knockout mice demonstrated that loss of CTCF had minimal effect on topologically associating domains; however, it selectively altered boundary strength and A/B compartmentalization, with gene expression changes mimicking those in heart failure. Loss of CTCF (or subjecting wild-type mice to clinically relevant pressure overload stress) remodeled long-range chromatin looping to alter 3D proximity of enhancers and disease causing genes. Depletion of CTCF was sufficient to induce heart failure in mice and human heart failure patients receiving mechanical unloading to attenuate disease progression show increased CTCF expression. These findings establish CTCF in the maintenance of chromatin looping and identify global chromatin remodeling as a causative factor in heart failure.
 
Overall design Control, CTCF knockout, and pressure overload Hi-C experiments in isolated cardiac myocytes
Please note that each sample represents combined replicates and processed data was generated from the combined samples.
 
Contributor(s) Vondriska TM, Garrido MR, Chapski DJ
Citation(s) 28802249
Submission date Mar 16, 2017
Last update date May 15, 2019
Contact name Tom Vondriska
E-mail(s) vondriska.web@gmail.com
Organization name UCLA
Street address 650 Charles E Young Dr, BH553
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (3)
GSM2544836 Control_HiC
GSM2544837 TAC_HiC
GSM2544839 CTCF_Knockout_HiC
This SubSeries is part of SuperSeries:
GSE96693 Loss of CTCF reveals basic properties of post-mitotic epigenomes and induces heart failure
Relations
BioProject PRJNA379860
SRA SRP102202

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

Supplementary file Size Download File type/resource
GSE96692_RAW.tar 37.5 Gb (http)(custom) TAR (of HIC)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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