MSTD: an efficient method for detecting multi-scale topological domains from symmetric and asymmetric 3D genomic maps.

ABSTRACT: The chromosome conformation capture (3C) technique and its variants have been employed to reveal the existence of a hierarchy of structures in three-dimensional (3D) chromosomal architecture, including compartments, topologically associating domains (TADs), sub-TADs and chromatin loops. However, existing methods for domain detection were only designed based on symmetric Hi-C maps, ignoring long-range interaction structures between domains. To this end, we proposed a generic and efficient method to identify multi-scale topological domains (MSTD), including cis- and trans-interacting regions, from a variety of 3D genomic datasets. We first applied MSTD to detect promoter-anchored interaction domains (PADs) from promoter capture Hi-C datasets across 17 primary blood cell types. The boundaries

SUBMITTER: Ye Y 

PROVIDER: S-EPMC6582338 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature