HiCLift: a fast and efficient tool for converting chromatin interaction data between genome assemblies.

ABSTRACT:

Motivation

With the continuous effort to improve the quality of human reference genome and the generation of more and more personal genomes, the conversion of genomic coordinates between genome assemblies is critical in many integrative and comparative studies. While tools have been developed for such task for linear genome signals such as ChIP-Seq, no tool exists to convert genome assemblies for chromatin interaction data, despite the importance of three-dimensional genome organization in gene regulation and disease.

Results

Here, we present HiCLift, a fast and efficient tool that can convert the genomic coordinates of chromatin contacts such as Hi-C and Micro-C from one assembly to another, including the latest T2T-CHM13 genome. Comparing with the strategy of directly rema

SUBMITTER: Wang X 

PROVIDER: S-EPMC10313346 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature