HCMB: A stable and efficient algorithm for processing the normalization of highly sparse Hi-C contact data.

ABSTRACT: The high-throughput genome-wide chromosome conformation capture (Hi-C) method has recently become an important tool to study chromosomal interactions where one can extract meaningful biological information including P(s) curve, topologically associated domains, A/B compartments, and other biologically relevant signals. Normalization is a critical pre-processing step of downstream analyses for the elimination of systematic and technical biases from chromatin contact matrices due to different mappability, GC content, and restriction fragment lengths. Especially, the problem of high sparsity puts forward a huge challenge on the correction, indicating the urgent need for a stable and efficient method for Hi-C data normalization. Recently, some matrix balancing methods have been developed to no

SUBMITTER: Wu H 

PROVIDER: S-EPMC8120939 | biostudies-literature | 2021

REPOSITORIES: biostudies-literature