ChromContact: A web tool for analyzing spatial contact of chromosomes from Hi-C data.
ChromContact: A web tool for analyzing spatial contact of chromosomes from Hi-C data.
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Chromcontact：一种用于分析HI-C数据染色体空间接触的Web工具。
DOI：
10.1186/s12864-015-2282-x
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发表时间：
2015-12-15
期刊：
影响因子：
4.4
通讯作者：
Suyama M
中科院分区：
文献类型：
--
作者：
Sato T;Suyama M
Hi-C 分析揭示了细胞核中染色体的三维结构。尽管 Hi-C 数据包含有关染色体长程相互作用的有价值的信息，但由于数据量的原因，该数据尚未被分子生物学家广泛利用。我们开发了一个网络工具 ChromContact 来利用 Hi-C 获得的信息。该网络工具设计简单且易于使用。通过指定感兴趣的位点，ChromContact 计算联系人资料并生成 UCSC 基因组浏览器的链接，使用户能够通过各种注释直观地检查联系人信息。 ChromContact 为广大分子生物学家提供了一种用户友好的方式来访问高分辨率 Hi-C 数据。 ChromContact 的可能应用之一是研究新型长程启动子-增强子相互作用。这有助于对由 GWAS 或 ChIP-seq 峰鉴定的、远离任何注释基因的统计显着标记进行功能解释。 ChromContact 可通过 http://bioinfo.sls.kyushu-u.ac.jp/chromcontact/ 免费访问。
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. 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. 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/.