TY - JOUR
T1 - HiCPlotter integrates genomic data with interaction matrices
AU - Akdemir, Kadir Caner
AU - Chin, Lynda
N1 - Publisher Copyright:
© 2015 Akdemir and Chin.
PY - 2015/9/21
Y1 - 2015/9/21
N2 - 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.
AB - 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.
UR - http://www.scopus.com/inward/record.url?scp=84955698251&partnerID=8YFLogxK
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U2 - 10.1186/s13059-015-0767-1
DO - 10.1186/s13059-015-0767-1
M3 - Article
C2 - 26392354
AN - SCOPUS:84955698251
SN - 1474-7596
VL - 16
JO - Genome biology
JF - Genome biology
IS - 1
M1 - 198
ER -