Analysis of the structural variability of topologically associated domains as revealed by Hi-C.

ABSTRACT: Three-dimensional chromosome structure plays an integral role in gene expression and regulation, replication timing, and other cellular processes. Topologically associated domains (TADs), building blocks of chromosome structure, are genomic regions with higher contact frequencies within the region than outside the region. A central question is the degree to which TADs are conserved or vary between conditions. We analyze 137 Hi-C samples from 9 studies under 3 measures to quantify the effects of various sources of biological and experimental variation. We observe significant variation in TAD sets between both non-replicate and replicate samples, and provide initial evidence that this variability does not come from genetic sequence differences. The effects of experimental protocol difference

SUBMITTER: Sauerwald N 

PROVIDER: S-EPMC6824515 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature