Nucleosome eviction and multiple co-factor binding predict estrogen-receptor-alpha-associated long-range interactions.

ABSTRACT: Many enhancers regulate their target genes via long-distance interactions. High-throughput experiments like ChIA-PET have been developed to map such largely cell-type-specific interactions between cis-regulatory elements genome-widely. In this study, we integrated multiple types of data in order to reveal the general hidden patterns embedded in the ChIA-PET data. We found characteristic distance features related to promoter-promoter, enhancer-enhancer and insulator-insulator interactions. Although a protein may have many binding sites along the genome, our hypothesis is that those sites that share certain open chromatin structure can accommodate relatively larger protein complex consisting of specific regulatory and 'bridging' factors, and may be more likely to form robust long-range deoxy

SUBMITTER: He C 

PROVIDER: S-EPMC4066761 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature