Comparison of computational methods for the identification of topologically associating domains.

ABSTRACT:

Background

Chromatin folding gives rise to structural elements among which are clusters of densely interacting DNA regions termed topologically associating domains (TADs). TADs have been characterized across multiple species, tissue types, and differentiation stages, sometimes in association with regulation of biological functions. The reliability and reproducibility of these findings are intrinsically related with the correct identification of these domains from high-throughput chromatin conformation capture (Hi-C) experiments.

Results

Here, we test and compare 22 computational methods to identify TADs across 20 different conditions. We find that TAD sizes and numbers vary significantly among callers and data resolutions, challenging the definition of an average TAD size, b

SUBMITTER: Zufferey M 

PROVIDER: S-EPMC6288901 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature