HiCHap: a package to correct and analyze the diploid Hi-C data.

ABSTRACT:

Background

In diploid cells, it is important to construct maternal and paternal Hi-C contact maps respectively since the two homologous chromosomes can differ in chromatin three-dimensional (3D) organization. Though previous softwares could construct diploid (maternal and paternal) Hi-C contact maps by using phased genetic variants, they all neglected the systematic biases in diploid Hi-C contact maps caused by variable genetic variant density in the genome. In addition, few of softwares provided quantitative analyses on allele-specific chromatin 3D organization, including compartment, topological domain and chromatin loop.

Results

In this work, we revealed the feature of allele-assignment bias caused by the variable genetic variant density, and then proposed a novel strateg

SUBMITTER: Luo H 

PROVIDER: S-EPMC7590616 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature