ChromContact: A web tool for analyzing spatial contact of chromosomes from Hi-C data

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Abstract

BACKGROUND: Hi-C analysis has revealed the three-dimensional architecture of chromosomes in the nucleus. Although Hi-C data contains valuable information on long-range interactions of chromosomes, the data is not yet widely utilized by molecular biologists because of the quantity of data.<br /><br />RESULTS: We developed a web tool, ChromContact, to utilize the information obtained by Hi-C. The web tool is designed to be simple and easy to use. By specifying a locus of interest, ChromContact calculates contact profiles and generates links to the UCSC Genome Browser, enabling users to visually examine the contact information with various annotations.<br /><br />CONCLUSION: ChromContact provides wide-range of molecular biologists with a user-friendly means to access high-resolution Hi-C data. One of the possible applications of ChromContact is investigating novel long-range promoter-enhancer interactions. This facilitates the functional interpretation of statistically significant markers identified by GWAS or ChIP-seq peaks that are located far from any annotated genes. ChromContact is freely accessible at http://bioinfo.sls.kyushu-u.ac.jp/chromcontact/ .

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Sato, T., & Suyama, M. (2015). ChromContact: A web tool for analyzing spatial contact of chromosomes from Hi-C data. BMC Genomics, 16(1). https://doi.org/10.1186/s12864-015-2282-x

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