Package 'HiCDataHumanIMR90'

Title: Human IMR90 Fibroblast HiC data from Dixon et al. 2012
Description: The HiC data from Human Fibroblast IMR90 cell line (HindIII restriction) was retrieved from the GEO website, accession number GSE35156 (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE35156). The raw reads were processed as explained in Dixon et al. (Nature 2012).
Authors: Nicolas Servant
Maintainer: Nicolas Servant <[email protected]>
License: GPL-3
Version: 1.32.0
Built: 2026-10-10 11:11:52 UTC
Source: https://github.com/bioc/HiCDataHumanIMR90

Help Index

HiC data Human IMR90

Description

Human Fibroblast IMR90 Hi-C Data (Dixon et al.)

Usage

data(Dixon2012_IMR90)

Format

Contains one HTClist objects (hic_imr90_40) and one GRanges object (tads_imr90). The hic_imr90_40 object contains all intra/interchromosmal contact maps. The tads_imr90 object contains the intervals of topological domains.

Details

This HiC dataset published by Dixon et al (GSE35156), contains all genome-wide contact maps.

Source

http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE35156

References

Dixon JR, Selvaraj S, Yue F, Kim A et al. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature 2012 Apr 11;485(7398):376-80.

Examples

data(Dixon2012_IMR90)
show(hic_imr90_40)
show(tads_imr90)