DiffGR: Detecting Differentially Interacting Genomic Regions from Hi-C Contact Maps.

ABSTRACT: Recent advances in high-throughput chromosome conformation capture (Hi-C) techniques have allowed us to map genome-wide chromatin interactions and uncover higher-order chromatin structures, thereby shedding light on the principles of genome architecture and functions. However, statistical methods for detecting changes in large-scale chromatin organization such as topologically associating domains (TADs) are still lacking. Here, we proposed a new statistical method, DiffGR, for detecting differentially interacting genomic regions at the TAD level between Hi-C contact maps. We utilized the stratum-adjusted correlation coefficient to measure similarity of local TAD regions. We then developed a nonparametric approach to identify statistically significant changes of genomic interacting regions.

SUBMITTER: Liu H 

PROVIDER: S-EPMC12016564 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature