title: HiCPlotter integrates genomic data with interaction matrices.
abstract: Metazoan genomic material is folded into stable non-randomly arranged chromosomal structures that are tightly associated with transcriptional regulation and DNA replication. Various factors including regulators of pluripotency, long non-coding RNAs, or the presence of architectural proteins have been implicated in regulation and assembly of the chromatin architecture. Therefore, comprehensive visualization of this multi-faceted structure is important to unravel the connections between nuclear architecture and transcriptional regulation. Here, we present an easy-to-use open-source visualization tool, HiCPlotter, to facilitate juxtaposition of Hi-C matrices with diverse genomic assay outputs, as well as to compare interaction matrices between various conditions. https://github.com/kcakdemir/HiCPlotter.
authors.affiliation: Department of Genomic Medicine, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA. kcakedemir@mdanderson.org.
authors.forename: Kadir Caner
authors.initials: KC
authors.lastname: Akdemir
authors.affiliation: Department of Genomic Medicine, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA. lchin@mdanderson.org.|Institute for Applied Cancer Science, The University of Texas MD Anderson Cancer Center, Houston, TX, 77030, USA. lchin@mdanderson.org.
authors.forename: Lynda
authors.initials: L
authors.lastname: Chin
mesh_terms: D000818:Animals; D002843:Chromatin / Q000235:genetics; D004261:DNA Replication / Q000235:genetics*; D057225:Data Mining / Q000379:methods; D005786:Gene Expression Regulation; D016678:Genome / Q000235:genetics*; D012984:Software
chemical_list: D002843:Chromatin