Network analysis identifies chromosome intermingling regions as regulatory hotspots for transcription.

ABSTRACT: The 3D structure of the genome plays a key role in regulatory control of the cell. Experimental methods such as high-throughput chromosome conformation capture (Hi-C) have been developed to probe the 3D structure of the genome. However, it remains a challenge to deduce from these data chromosome regions that are colocalized and coregulated. Here, we present an integrative approach that leverages 1D functional genomic features (e.g., epigenetic marks) with 3D interactions from Hi-C data to identify functional interchromosomal interactions. We construct a weighted network with 250-kb genomic regions as nodes and Hi-C interactions as edges, where the edge weights are given by the correlation between 1D genomic features. Individual interacting clusters are determined using weighted correlation

SUBMITTER: Belyaeva A 

PROVIDER: S-EPMC5748172 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature