HiC-ACT: improved detection of chromatin interactions from Hi-C data via aggregated Cauchy test.

ABSTRACT: Genome-wide chromatin conformation capture technologies such as Hi-C are commonly employed to study chromatin spatial organization. In particular, to identify statistically significant long-range chromatin interactions from Hi-C data, most existing methods such as Fit-Hi-C/FitHiC2 and HiCCUPS assume that all chromatin interactions are statistically independent. Such an independence assumption is reasonable at low resolution (e.g., 40 kb bin) but is invalid at high resolution (e.g., 5 or 10 kb bins) because spatial dependency of neighboring chromatin interactions is non-negligible at high resolution. Our previous hidden Markov random field-based methods accommodate spatial dependency but are computationally intensive. It is urgent to develop approaches that can model spatial dependence in a

SUBMITTER: Lagler TM 

PROVIDER: S-EPMC7895999 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature