Osmanbeyoglu, HU and Hartmaier, RJ and Oesterreich, S and Lu, X
(2012)
Improving ChIP-seq peak-calling for functional co-regulator binding by integrating multiple sources of biological information.
Series on Advances in Bioinformatics and Computational Biology, 13.
ISSN 1751-6404
Abstract
Background: Chromatin immunoprecipitation coupled with massively parallel sequencing (ChIP-seq) is increasingly being applied to study genome-wide binding sites of transcription factors. There is an increasing interest in understanding the mechanism of action of co-regulator proteins, which do not bind DNA directly, but exert their effects by binding to transcription factors such as the estrogen receptor (ER). However, due to the nature of detecting indirect protein-DNA interaction, ChIP-seq signals from co-regulators can be relatively weak and thus biologically meaningful interactions remain difficult to identify.
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