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Improving ChIP-seq peak-calling for functional co-regulator binding by integrating multiple sources of biological information

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

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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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Details

Item Type: Article
Status: Published
Creators/Authors:
CreatorsEmailPitt UsernameORCID
Osmanbeyoglu, HUosmanbeyogluhu@pitt.eduHUO30000-0002-3175-1777
Hartmaier, RJrjh70@pitt.eduRJH70orcid.org/0000-0001-7416-6036#sthash.wHE891bE.dpuf
Oesterreich, Ssto16@pitt.eduSTO16
Lu, Xxinghua@pitt.eduXINGHUA
Date: 1 January 2012
Date Type: Publication
Journal or Publication Title: Series on Advances in Bioinformatics and Computational Biology
Volume: 13
DOI or Unique Handle: 10.1186/1471-2164-13-s1-s1
Schools and Programs: School of Medicine > Biomedical Informatics
School of Medicine > Pharmacology and Chemical Biology
Refereed: Yes
ISSN: 1751-6404
Date Deposited: 01 Nov 2016 18:11
Last Modified: 30 Mar 2021 17:55
URI: http://d-scholarship.pitt.edu/id/eprint/29970

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