Maximum parsimony interpretation of chromatin capture experiments.

ABSTRACT: We present a new approach to characterizing the global geometric state of chromatin from HiC data. Chromatin conformation capture techniques (3C, and its variants: 4C, 5C, HiC, etc.) probe the spatial structure of the genome by identifying physical contacts between genomic loci within the nuclear space. In whole-genome conformation capture (HiC) experiments, the signal can be interpreted as spatial proximity between genomic loci and physical distances can be estimated from the data. However, observed spatial proximity signal does not directly translate into persistent contacts within the nuclear space. Attempts to infer a single conformation of the genome within the nuclear space lead to internal geometric inconsistencies, notoriously violating the triangle inequality. These inconsistencie

SUBMITTER: Homouz D 

PROVIDER: S-EPMC6876987 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature