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The TAO-Gen algorithm for identifying gene interaction networks with application to SOS repair in E. coli.
Yamanaka T, Toyoshiba H, Sone H, Parham FM, Portier CJ.
Environ Health Perspect. 2004 Nov;112(16):1614-21.PMID: 15598612 [PubMed - indexed for MEDLINE]Related articlesFree article
Inference of gene networks from temporal gene expression profiles.
Bansal M, di Bernardo D.
IET Syst Biol. 2007 Sep;1(5):306-12.PMID: 17907680 [PubMed - indexed for MEDLINE]Related articles
Genetic network identification using convex programming.
Julius A, Zavlanos M, Boyd S, Pappas GJ.
IET Syst Biol. 2009 May;3(3):155-66.PMID: 19449976 [PubMed - indexed for MEDLINE]Related articles
Network evaluation from the consistency of the graph structure with the measured data.
Saito S, Aburatani S, Horimoto K.
BMC Syst Biol. 2008 Oct 1;2:84.PMID: 18828895 [PubMed - indexed for MEDLINE]Related articlesFree article
Inference of gene regulatory networks and compound mode of action from time course gene expression profiles.
Bansal M, Gatta GD, di Bernardo D.
Bioinformatics. 2006 Apr 1;22(7):815-22. Epub 2006 Jan 17.PMID: 16418235 [PubMed - indexed for MEDLINE]Related articlesFree article
DNA array analysis of gene expression in response to UV irradiation in Escherichia coli.
Quillardet P, Rouffaud MA, Bouige P.
Res Microbiol. 2003 Oct;154(8):559-72.PMID: 14527657 [PubMed - indexed for MEDLINE]Related articles
Identification of biochemical networks by S-tree based genetic programming.
Cho DY, Cho KH, Zhang BT.
Bioinformatics. 2006 Jul 1;22(13):1631-40. Epub 2006 Apr 3.PMID: 16585066 [PubMed - indexed for MEDLINE]Related articlesFree article
A generalized framework for network component analysis.
Boscolo R, Sabatti C, Liao JC, Roychowdhury VP.
IEEE/ACM Trans Comput Biol Bioinform. 2005 Oct-Dec;2(4):289-301.PMID: 17044167 [PubMed - indexed for MEDLINE]Related articles
Bayesian sparse hidden components analysis for transcription regulation networks.
Sabatti C, James GM.
Bioinformatics. 2006 Mar 15;22(6):739-46. Epub 2005 Dec 20.PMID: 16368767 [PubMed - indexed for MEDLINE]Related articlesFree article
Identification of regulatory network topological units coordinating the genome-wide transcriptional response to glucose in Escherichia coli.
Gutierrez-Ríos RM, Freyre-Gonzalez JA, Resendis O, Collado-Vides J, Saier M, Gosset G.
BMC Microbiol. 2007 Jun 8;7:53.PMID: 17559662 [PubMed - indexed for MEDLINE]Related articlesFree article
Gene networks inference using dynamic Bayesian networks.
Perrin BE, Ralaivola L, Mazurie A, Bottani S, Mallet J, d'Alché-Buc F.
Bioinformatics. 2003 Oct;19 Suppl 2:ii138-48.PMID: 14534183 [PubMed - indexed for MEDLINE]Related articlesFree article
Factor analysis for gene regulatory networks and transcription factor activity profiles.
Pournara I, Wernisch L.
BMC Bioinformatics. 2007 Feb 23;8:61.PMID: 17319944 [PubMed - indexed for MEDLINE]Related articlesFree article
Reverse engineering genetic networks using evolutionary computation.
Noman N, Iba H.
Genome Inform. 2005;16(2):205-14.PMID: 16901103 [PubMed - indexed for MEDLINE]Related articles
Gene expression analysis on biochemical networks using the Potts spin model.
König R, Eils R.
Bioinformatics. 2004 Jul 10;20(10):1500-5.PMID: 15231542 [PubMed - indexed for MEDLINE]Related articlesFree article
Weighted lasso in graphical Gaussian modeling for large gene network estimation based on microarray data.
Shimamura T, Imoto S, Yamaguchi R, Miyano S.
Genome Inform. 2007;19:142-53.PMID: 18546512 [PubMed - indexed for MEDLINE]Related articlesFree article
An effective structure learning method for constructing gene networks.
Chen XW, Anantha G, Wang X.
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Quantitative inference of dynamic regulatory pathways via microarray data.
Chang WC, Li CW, Chen BS.
BMC Bioinformatics. 2005 Mar 7;6:44.PMID: 15748298 [PubMed - indexed for MEDLINE]Related articlesFree article
Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles.
Faith JJ, Hayete B, Thaden JT, Mogno I, Wierzbowski J, Cottarel G, Kasif S, Collins JJ, Gardner TS.
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A hybrid Bayesian network learning method for constructing gene networks.
Wang M, Chen Z, Cloutier S.
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Synthetic tetracycline-inducible regulatory networks: computer-aided design of dynamic phenotypes.
Sotiropoulos V, Kaznessis YN.
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