7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs.

ABSTRACT:

Background

Knowledge of the three-dimensional structure of the genome is necessary to understand how gene expression is regulated. Recent experimental techniques such as Hi-C or ChIA-PET measure long-range chromatin interactions genome-wide but are experimentally elaborate, have limited resolution and such data is only available for a limited number of cell types and tissues.

Results

While ChIP-seq was not designed to detect chromatin interactions, the formaldehyde treatment in the ChIP-seq protocol cross-links proteins with each other and with DNA. Consequently, also regions that are not directly bound by the targeted TF but interact with the binding site via chromatin looping are co-immunoprecipitated and sequenced. This produces minor ChIP-seq signals at loop anchor regio

SUBMITTER: Ibn-Salem J 

PROVIDER: S-EPMC6814980 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature