HiCcompare: an R-package for joint normalization and comparison of HI-C datasets.

ABSTRACT:

Background

Changes in spatial chromatin interactions are now emerging as a unifying mechanism orchestrating the regulation of gene expression. Hi-C sequencing technology allows insight into chromatin interactions on a genome-wide scale. However, Hi-C data contains many DNA sequence- and technology-driven biases. These biases prevent effective comparison of chromatin interactions aimed at identifying genomic regions differentially interacting between, e.g., disease-normal states or different cell types. Several methods have been developed for normalizing individual Hi-C datasets. However, they fail to account for biases between two or more Hi-C datasets, hindering comparative analysis of chromatin interactions.

Results

We developed a simple and effective method, HiCcompare, f

SUBMITTER: Stansfield JC 

PROVIDER: S-EPMC6069782 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature