Inferring biomolecular regulatory networks from phase portraits of time-series expression profiles

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dc.contributor.authorCho, Kwang-Hyunko
dc.contributor.authorKim, JRko
dc.contributor.authorBaek, Sko
dc.contributor.authorChoi, HSko
dc.contributor.authorChoo, SMko
dc.date.accessioned2013-03-08T02:41:48Z-
dc.date.available2013-03-08T02:41:48Z-
dc.date.created2012-02-06-
dc.date.created2012-02-06-
dc.date.issued2006-06-
dc.identifier.citationFEBS LETTERS, v.580, pp.3511 - 3518-
dc.identifier.issn0014-5793-
dc.identifier.urihttp://hdl.handle.net/10203/91869-
dc.description.abstractReverse engineering of biomolecular regulatory networks such as gene regulatory networks, protein interaction networks, and metabolic networks has received an increasing attention as more high-throughput time-series measurements become available. In spite of various approaches developed from this motivation, it still remains as a challenging subject to develop a new reverse engineering scheme that can effectively uncover the functional interaction structure of a biomolecular network from given time-series expression profiles (TSEPs). We propose a new reverse engineering scheme that makes use of phase portraits constructed by projection of every two TSEPs into respective phase planes. We introduce two measures of a slope index (SI) and a winding index (WI) to quantify the interaction properties embedded in the phase portrait. Based on the SI and WI, we can reconstruct the functional interaction network in a very efficient and systematic way with better inference results compared to previous approaches. By using the SI, we can also estimate the time-lag accompanied with the interaction between molecular components of a network. (c) 2006 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.-
dc.languageEnglish-
dc.publisherELSEVIER SCIENCE BV-
dc.subjectGENE-EXPRESSION-
dc.subjectINFERENCE-
dc.subjectPROTEIN-
dc.subjectCELLS-
dc.titleInferring biomolecular regulatory networks from phase portraits of time-series expression profiles-
dc.typeArticle-
dc.identifier.wosid000238320100029-
dc.identifier.scopusid2-s2.0-33746453400-
dc.type.rimsART-
dc.citation.volume580-
dc.citation.beginningpage3511-
dc.citation.endingpage3518-
dc.citation.publicationnameFEBS LETTERS-
dc.identifier.doi10.1016/j.febslet.2006.05.035-
dc.contributor.localauthorCho, Kwang-Hyun-
dc.contributor.nonIdAuthorKim, JR-
dc.contributor.nonIdAuthorBaek, S-
dc.contributor.nonIdAuthorChoi, HS-
dc.contributor.nonIdAuthorChoo, SM-
dc.type.journalArticleArticle-
dc.subject.keywordAuthorregulatory networks-
dc.subject.keywordAuthorphase portraits-
dc.subject.keywordAuthortime-series expression profiles-
dc.subject.keywordAuthorreverse engineering-
dc.subject.keywordPlusGENE-EXPRESSION-
dc.subject.keywordPlusINFERENCE-
dc.subject.keywordPlusPROTEIN-
dc.subject.keywordPlusCELLS-
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