Journal article Open Access

The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions

Wang, Yanli; Song, Fan; Zhang, Bo; Zhang, Lijun; Xu, Jie; Kuang, Da; Li, Daofeng; Choudhary, Mayank NK; Li, Yun; Hu, Ming; Hardison, Ross; Wang, Ting; Yue, Feng

Here we introduce the 3D Genome Browser (http://3dgenome.org), which allows users to conveniently explore both their own and over 300 publicly available chromatin interaction data of different types. We design a new binary data format for Hi-C data that reduces the file size by at least a magnitude and allows users to visualize chromatin interactions over millions of base pairs within seconds. Our browser provides multiple methods linking distal cis-regulatory elements with their potential target genes. Users can seamlessly integrate thousands of other “omics” data to gain a comprehensive view of both regulatory landscape and 3D genome structure.

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