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Three-dimensional genome visualization software tools | Hi-C data analysis

Efficient and accurate visualization of Hi-C data is not straightforward because Hi-C data is large and tools for the visualization of large-scale genomic data, such as genome browsers, do not directly generalize to visualizing data defined over pairs of loci. Source text : (Yardımcı and Noble, 2017) Software tools for visualizing Hi-C data. Genome Biology.

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3D Genome Browser
Allows users to visualize and explore chromatin interaction data, such as Hi-C, ChIA-PET, Capture Hi-C, PLAC-Seq, and more. 3D Genome Browser also allows users to browse other omics data such as ChIP-Seq or RNA-Seq for the same genomic region, and gain a complete view of both regulatory landscape and 3D genome structure for any given gene. Users can also check the expression of any queried gene across hundreds of tissue/cell types measured by the ENCODE consortium. Finally, the virtual 4C page provides multiple methods to link distal cis-regulatory elements with their potential target genes, including virtual 4C, ChIA-PET and cross-cell-type correlation of proximal and distal DHSs.
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