Detecting hierarchical genome folding with network modularity.

ABSTRACT: Mammalian genomes are folded in a hierarchy of compartments, topologically associating domains (TADs), subTADs and looping interactions. Here, we describe 3DNetMod, a graph theory-based method for sensitive and accurate detection of chromatin domains across length scales in Hi-C data. We identify nested, partially overlapping TADs and subTADs genome wide by optimizing network modularity and varying a single resolution parameter. 3DNetMod can be applied broadly to understand genome reconfiguration in development and disease.

SUBMITTER: Norton HK 

PROVIDER: S-EPMC6029251 | biostudies-literature | 2018 Feb

REPOSITORIES: biostudies-literature