A computational strategy to adjust for copy number in tumor Hi-C data.
Bioinformatics
; 32(24): 3695-3701, 2016 12 15.
Article
em En
| MEDLINE
| ID: mdl-27531101
ABSTRACT
MOTIVATION The Hi-C technology was designed to decode the three-dimensional conformation of the genome. Despite progress towards more and more accurate contact maps, several systematic biases have been demonstrated to affect the resulting data matrix. Here we report a new source of bias that can arise in tumor Hi-C data, which is related to the copy number of genomic DNA. To address this bias, we designed a chromosome-adjusted iterative correction method called caICB. Our caICB correction method leads to significant improvements when compared with the original iterative correction in terms of eliminating copy number bias. AVAILABILITY AND IMPLEMENTATION The method is available at https//bitbucket.org/mthjwu/hicapp CONTACT michor@jimmy.harvard.eduSupplementary information Supplementary data are available at Bioinformatics online.
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Software
/
Biologia Computacional
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Variações do Número de Cópias de DNA
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Neoplasias
Limite:
Humans
Idioma:
En
Revista:
Bioinformatics
Assunto da revista:
INFORMATICA MEDICA
Ano de publicação:
2016
Tipo de documento:
Article
País de afiliação:
Estados Unidos