Hi-C Aggregate Resource


We provide a Hi-C data aggregate resource. The aggregate is constructed of at least 3500 human, 6600 mouse and 400 drosophila SRA runs.

Full Aggregate for All Resolutions


All genome-wide Hi-C aggregate dataset for a species/resolution combination is available here . The downloaded file is in Hi-C Explorer format. Files range from a few MB to tens of GB, so download times may be long.


Gene Vectors


Obtain the contacts of a gene with the entire genome for various species/resolution combination under the Gene Vector tab. The downloaded vector is a BED file where the coloumns are chrom chromStart chromEnd contact_frequency. This file can be loaded in UCSC genome browser as a custom track



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If so, please consider citing us at:

Ruchi Lohia, Nathan Fox, and Jesse Gillis
title of paper, BioRxiv, pub date,
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Have a question or issue?

Feel free to contact John Lee at johlee@cshl.edu to report an issue, suggest an update, or ask for help.

Download Gene Vector

Gene Vectors for All Resolutions