FastHiC: a fast and accurate algorithm to detect long-range chromosomal interactions from Hi-C data.

ABSTRACT:

Motivation

How chromatin folds in three-dimensional (3D) space is closely related to transcription regulation. As powerful tools to study such 3D chromatin conformation, the recently developed Hi-C technologies enable a genome-wide measurement of pair-wise chromatin interaction. However, methods for the detection of biologically meaningful chromatin interactions, i.e. peak calling, from Hi-C data, are still under development. In our previous work, we have developed a novel hidden Markov random field (HMRF) based Bayesian method, which through explicitly modeling the non-negligible spatial dependency among adjacent pairs of loci manifesting in high resolution Hi-C data, achieves substantially improved robustness and enhanced statistical power in peak calling. Superior to peak caller

SUBMITTER: Xu Z 

PROVIDER: S-EPMC5013904 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature