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PSU 3D Genome Browser

https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1519-9

Methods

linear single view single scale single focus segregated no abstraction no arrangement within interconnection between interconnection point sparse type segment contiguous type

Tool

Tool:

PSU 3D Genome Browser

Tool Link:

http://3dgenome.org

Paper

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


Wang Y, Song F, Zhang B, Zhang L, Xu J, Kuang D, et al. The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions. Genome Biol. genomebiology.biomedcentral.com; 2018;19: 151.

Cited by: 58

Abstract

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.