Reconstructing diploid 3D chromatin structures from single cell Hi-C data with a polymer-based approach.

ABSTRACT: Detailed understanding of the 3D structure of chromatin is a key ingredient to investigate a variety of processes inside the cell. Since direct methods to experimentally ascertain these structures lack the desired spatial fidelity, computational inference methods based on single cell Hi-C data have gained significant interest. Here, we develop a progressive simulation protocol to iteratively improve the resolution of predicted interphase structures by maximum-likelihood association of ambiguous Hi-C contacts using lower-resolution predictions. Compared to state-of-the-art methods, our procedure is not limited to haploid cell data and allows us to reach a resolution of up to 5,000 base pairs per bead. High resolution chromatin models grant access to a multitude of structural phenomena. Exem

SUBMITTER: Rothorl J 

PROVIDER: S-EPMC10750380 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature