HiConfidence: a novel approach uncovering the biological signal in Hi-C data affected by technical biases.

ABSTRACT: The chromatin interaction assays, particularly Hi-C, enable detailed studies of genome architecture in multiple organisms and model systems, resulting in a deeper understanding of gene expression regulation mechanisms mediated by epigenetics. However, the analysis and interpretation of Hi-C data remain challenging due to technical biases, limiting direct comparisons of datasets obtained in different experiments and laboratories. As a result, removing biases from Hi-C-generated chromatin contact matrices is a critical data analysis step. Our novel approach, HiConfidence, eliminates biases from the Hi-C data by weighing chromatin contacts according to their consistency between replicates so that low-quality replicates do not substantially influence the result. The algorithm is effective for

SUBMITTER: Kobets VA 

PROVIDER: S-EPMC10025441 | biostudies-literature | 2023 Mar

REPOSITORIES: biostudies-literature