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Article: Modeling Genetic Regulatory Networks: A Delay Discrete Dynamical Model Approach

TitleModeling Genetic Regulatory Networks: A Delay Discrete Dynamical Model Approach
Authors
KeywordsDelay effects
Discrete dynamic system
Genetic regulatory networks
K-means clustering method
Linear multiple regression
Issue Date2012
PublisherSpringer Verlag. The Journal's web site is located at http://link.springer.com/journal/11424
Citation
Journal of Systems Science and Complexity, 2012, v. 25 n. 6, p. 1052-1067 How to Cite?
Abstract
Modeling genetic regulatory networks is an important research topic in genomic research and computational systems biology. This paper considers the problem of constructing a genetic regulatory network (GRN) using the discrete dynamic system (DDS) model approach. Although considerable research has been devoted to building GRNs, many of the works did not consider the time-delay effect. Here, the authors propose a time-delay DDS model composed of linear difference equations to represent temporal interactions among significantly expressed genes. The authors also introduce interpolation scheme and re-sampling method for equalizing the non-uniformity of sampling time points. Statistical significance plays an active role in obtaining the optimal interaction matrix of GRNs. The constructed genetic network using linear multiple regression matches with the original data very well. Simulation results are given to demonstrate the effectiveness of the proposed method and model. © 2012 Institute of Systems Science, Academy of Mathematics and Systems Science, CAS and Springer-Verlag Berlin Heidelberg.
Persistent Identifierhttp://hdl.handle.net/10722/164184
ISSN
2013 Impact Factor: 0.370
2013 SCImago Journal Rankings: 0.276
ISI Accession Number ID

 

DC FieldValueLanguage
dc.contributor.authorJiang, Hen_US
dc.contributor.authorChing, WKen_US
dc.contributor.authorAoki-Kinoshita, Ken_US
dc.contributor.authorGuo, Den_US
dc.date.accessioned2012-09-20T07:56:20Z-
dc.date.available2012-09-20T07:56:20Z-
dc.date.issued2012en_US
dc.identifier.citationJournal of Systems Science and Complexity, 2012, v. 25 n. 6, p. 1052-1067en_US
dc.identifier.issn1009-6124-
dc.identifier.urihttp://hdl.handle.net/10722/164184-
dc.description.abstractModeling genetic regulatory networks is an important research topic in genomic research and computational systems biology. This paper considers the problem of constructing a genetic regulatory network (GRN) using the discrete dynamic system (DDS) model approach. Although considerable research has been devoted to building GRNs, many of the works did not consider the time-delay effect. Here, the authors propose a time-delay DDS model composed of linear difference equations to represent temporal interactions among significantly expressed genes. The authors also introduce interpolation scheme and re-sampling method for equalizing the non-uniformity of sampling time points. Statistical significance plays an active role in obtaining the optimal interaction matrix of GRNs. The constructed genetic network using linear multiple regression matches with the original data very well. Simulation results are given to demonstrate the effectiveness of the proposed method and model. © 2012 Institute of Systems Science, Academy of Mathematics and Systems Science, CAS and Springer-Verlag Berlin Heidelberg.-
dc.languageengen_US
dc.publisherSpringer Verlag. The Journal's web site is located at http://link.springer.com/journal/11424-
dc.relation.ispartofJournal of Systems Science and Complexityen_US
dc.rightsThe original publication is available at www.springerlink.com-
dc.subjectDelay effects-
dc.subjectDiscrete dynamic system-
dc.subjectGenetic regulatory networks-
dc.subjectK-means clustering method-
dc.subjectLinear multiple regression-
dc.titleModeling Genetic Regulatory Networks: A Delay Discrete Dynamical Model Approachen_US
dc.typeArticleen_US
dc.identifier.emailChing, WK: wching@hku.hken_US
dc.identifier.authorityChing, WK=rp00679en_US
dc.identifier.doi10.1007/s11424-012-0283-2-
dc.identifier.scopuseid_2-s2.0-84871843955-
dc.identifier.hkuros208786en_US
dc.identifier.volume25en_US
dc.identifier.issue6-
dc.identifier.spage1052en_US
dc.identifier.epage1067en_US
dc.identifier.isiWOS:000312886700002-
dc.publisher.placeChina-

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