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

Tetsuya Sato, Mikita Suyama

    Research output: Contribution to journalArticle

    3 Citations (Scopus)

    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. 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. 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/.

    Original languageEnglish
    Article number1060
    JournalBMC genomics
    Volume16
    Issue number1
    DOIs
    Publication statusPublished - Dec 15 2015

    All Science Journal Classification (ASJC) codes

    • Biotechnology
    • Genetics

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