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GBNet: deciphering regulatory rules in the co-regulated genes using a Gibbs sampler enhanced Bayesian network approach.
Shen L, Liu J, Wang W.
BMC Bioinformatics. 2008 Sep 24;9:395.PMID: 18811979 [PubMed - indexed for MEDLINE]Related articlesFree article
A causal inference approach for constructing transcriptional regulatory networks.
Xing B, van der Laan MJ.
Bioinformatics. 2005 Nov 1;21(21):4007-13. Epub 2005 Aug 30.PMID: 16131521 [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
Unraveling condition specific gene transcriptional regulatory networks in Saccharomyces cerevisiae.
Kim H, Hu W, Kluger Y.
BMC Bioinformatics. 2006 Mar 21;7:165.PMID: 16551355 [PubMed - indexed for MEDLINE]Related articlesFree article
Bayesian variable selection for gene expression modeling with regulatory motif binding sites in neuroinflammatory events.
Liu KY, Zhou X, Kan K, Wong ST.
Neuroinformatics. 2006 Winter;4(1):95-117.PMID: 16595861 [PubMed - indexed for MEDLINE]Related articles
Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data.
Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.
BMC Bioinformatics. 2008 Apr 21;9:203.PMID: 18426580 [PubMed - indexed for MEDLINE]Related articlesFree article
Constructing gene co-expression networks and predicting functions of unknown genes by random matrix theory.
Luo F, Yang Y, Zhong J, Gao H, Khan L, Thompson DK, Zhou J.
BMC Bioinformatics. 2007 Aug 14;8:299.PMID: 17697349 [PubMed - indexed for MEDLINE]Related articlesFree article
Learning regulatory programs that accurately predict differential expression with MEDUSA.
Kundaje A, Lianoglou S, Li X, Quigley D, Arias M, Wiggins CH, Zhang L, Leslie C.
Ann N Y Acad Sci. 2007 Dec;1115:178-202. Epub 2007 Oct 12.PMID: 17934055 [PubMed - indexed for MEDLINE]Related articles
BNArray: an R package for constructing gene regulatory networks from microarray data by using Bayesian network.
Chen X, Chen M, Ning K.
Bioinformatics. 2006 Dec 1;22(23):2952-4. Epub 2006 Sep 27.PMID: 17005537 [PubMed - indexed for MEDLINE]Related articlesFree article
Bayesian integration of biological prior knowledge into the reconstruction of gene regulatory networks with Bayesian networks.
Husmeier D, Werhli AV.
Comput Syst Bioinformatics Conf. 2007;6:85-95.PMID: 17951815 [PubMed - indexed for MEDLINE]Related articlesFree article
Comparative evaluation of reverse engineering gene regulatory networks with relevance networks, graphical gaussian models and bayesian networks.
Werhli AV, Grzegorczyk M, Husmeier D.
Bioinformatics. 2006 Oct 15;22(20):2523-31. Epub 2006 Jul 14.PMID: 16844710 [PubMed - indexed for MEDLINE]Related articlesFree article
Predicting genetic regulatory response using classification.
Middendorf M, Kundaje A, Wiggins C, Freund Y, Leslie C.
Bioinformatics. 2004 Aug 4;20 Suppl 1:i232-40.PMID: 15262804 [PubMed - indexed for MEDLINE]Related articlesFree article
Inference of transcriptional regulatory network by two-stage constrained space factor analysis.
Yu T, Li KC.
Bioinformatics. 2005 Nov 1;21(21):4033-8. Epub 2005 Sep 6.PMID: 16144806 [PubMed - indexed for MEDLINE]Related articlesFree article
Inferring the role of transcription factors in regulatory networks.
Veber P, Guziolowski C, Le Borgne M, Radulescu O, Siegel A.
BMC Bioinformatics. 2008 May 6;9:228.PMID: 18460200 [PubMed - indexed for MEDLINE]Related articlesFree article
A framework for elucidating regulatory networks based on prior information and expression data.
Gevaert O, Van Vooren S, De Moor B.
Ann N Y Acad Sci. 2007 Dec;1115:240-8. Epub 2007 Oct 9.PMID: 17925352 [PubMed - indexed for MEDLINE]Related articles
Context-dependent clustering for dynamic cellular state modeling of microarray gene expression.
Yuan S, Li KC.
Bioinformatics. 2007 Nov 15;23(22):3039-47. Epub 2007 Sep 10.PMID: 17846037 [PubMed - indexed for MEDLINE]Related articlesFree article
EDISA: extracting biclusters from multiple time-series of gene expression profiles.
Supper J, Strauch M, Wanke D, Harter K, Zell A.
BMC Bioinformatics. 2007 Sep 12;8:334.PMID: 17850657 [PubMed - indexed for MEDLINE]Related articlesFree article
Rank-based edge reconstruction for scale-free genetic regulatory networks.
Chen G, Larsen P, Almasri E, Dai Y.
BMC Bioinformatics. 2008 Jan 31;9:75.PMID: 18237422 [PubMed - indexed for MEDLINE]Related articlesFree article
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
Utilizing evolutionary information and gene expression data for estimating gene networks with bayesian network models.
Tamada Y, Bannai H, Imoto S, Katayama T, Kanehisa M, Miyano S.
J Bioinform Comput Biol. 2005 Dec;3(6):1295-313.PMID: 16374908 [PubMed - indexed for MEDLINE]Related articles
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