HiBrowse: multi-purpose statistical analysis of genome-wide chromatin 3D organization

作者：Jonas Paulsen, Geir Kjetil Sandve, Sveinung Gundersen, Tonje G. Lien, Kai Trengereid, Eivind Hovig · 发表于：Bioinformatics · 年份：2014 · DOI：10.1093/bioinformatics/btu082 · 被引用次数：44 · 研究领域：Genomics and Chromatin Dynamics、Genomic variations and chromosomal abnormalities、Gene expression and cancer classification

UNLABELLED: Recently developed methods that couple next-generation sequencing with chromosome conformation capture-based techniques, such as Hi-C and ChIA-PET, allow for characterization of genome-wide chromatin 3D structure. Understanding the organization of chromatin in three dimensions is a crucial next step in the unraveling of global gene regulation, and methods for analyzing such data are needed. We have developed HiBrowse, a user-friendly web-tool consisting of a range of hypothesis-based and descriptive statistics, using realistic assumptions in null-models. AVAILABILITY AND IMPLEMENTATION: HiBrowse is supported by all major browsers, and is freely available at http://hyperbrowser.uio.no/3d. Software is implemented in Python, and source code is available for download by following instructions on the main site.