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A linear programming approach for estimating the structure of a sparse linear genetic network from transcript profiling data.

Bhadra S, Bhattacharyya C, Chandra NR, Mian IS.

Algorithms Mol Biol. 2009 Feb 24;4:5.PMID: 19239685 [PubMed]Related articlesFree article

Bayesian Orthogonal Least Squares (BOLS) algorithm for reverse engineering of gene regulatory networks.

Kim CS.

BMC Bioinformatics. 2007 Jul 13;8:251.PMID: 17626641 [PubMed - indexed for MEDLINE]Related articlesFree article

Regularized estimation of large-scale gene association networks using graphical Gaussian models.

Krämer N, Schäfer J, Boulesteix AL.

BMC Bioinformatics. 2009 Nov 24;10:384.PMID: 19930695 [PubMed - indexed for MEDLINE]Related articlesFree article

A duplication growth model of gene expression networks.

Bhan A, Galas DJ, Dewey TG.

Bioinformatics. 2002 Nov;18(11):1486-93.PMID: 12424120 [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

A copula method for modeling directional dependence of genes.

Kim JM, Jung YS, Sungur EA, Han KH, Park C, Sohn I.

BMC Bioinformatics. 2008 May 1;9:225.PMID: 18447957 [PubMed - indexed for MEDLINE]Related articlesFree article

A boosting approach to structure learning of graphs with and without prior knowledge.

Anjum S, Doucet A, Holmes CC.

Bioinformatics. 2009 Nov 15;25(22):2929-36. Epub 2009 Aug 20.PMID: 19696047 [PubMed - indexed for MEDLINE]Related articles

Generating realistic in silico gene networks for performance assessment of reverse engineering methods.

Marbach D, Schaffter T, Mattiussi C, Floreano D.

J Comput Biol. 2009 Feb;16(2):229-39.PMID: 19183003 [PubMed - indexed for MEDLINE]Related articles

Fitting a geometric graph to a protein-protein interaction network.

Higham DJ, Rasajski M, Przulj N.

Bioinformatics. 2008 Apr 15;24(8):1093-9. Epub 2008 Mar 14.PMID: 18344248 [PubMed - indexed for MEDLINE]Related articlesFree article

Efficient, sparse biological network determination.

August E, Papachristodoulou A.

BMC Syst Biol. 2009 Feb 23;3:25.PMID: 19236711 [PubMed - indexed for MEDLINE]Related articlesFree article

Gradient directed regularization for sparse Gaussian concentration graphs, with applications to inference of genetic networks.

Li H, Gui J.

Biostatistics. 2006 Apr;7(2):302-17. Epub 2005 Dec 2.PMID: 16326758 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Low-order conditional independence graphs for inferring genetic networks.

Wille A, Bühlmann P.

Stat Appl Genet Mol Biol. 2006;5:Article1. Epub 2006 Jan 4.PMID: 16646863 [PubMed - indexed for MEDLINE]Related articlesFree article

An effective structure learning method for constructing gene networks.

Chen XW, Anantha G, Wang X.

Bioinformatics. 2006 Jun 1;22(11):1367-74. Epub 2006 Mar 16.PMID: 16543279 [PubMed - indexed for MEDLINE]Related articlesFree article

Reverse engineering module networks by PSO-RNN hybrid modeling.

Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.

BMC Genomics. 2009 Jul 7;10 Suppl 1:S15.PMID: 19594874 [PubMed - indexed for MEDLINE]Related articlesFree article

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

Evolutionary approaches for the reverse-engineering of gene regulatory networks: a study on a biologically realistic dataset.

Auliac C, Frouin V, Gidrol X, d'Alché-Buc F.

BMC Bioinformatics. 2008 Feb 8;9:91.PMID: 18261218 [PubMed - indexed for MEDLINE]Related articlesFree article

An ensemble learning approach to reverse-engineering transcriptional regulatory networks from time-series gene expression data.

Ruan J, Deng Y, Perkins EJ, Zhang W.

BMC Genomics. 2009 Jul 7;10 Suppl 1:S8.PMID: 19594885 [PubMed - indexed for MEDLINE]Related articlesFree article

EXAMINE: a computational approach to reconstructing gene regulatory networks.

Deng X, Geng H, Ali H.

Biosystems. 2005 Aug;81(2):125-36.PMID: 15951103 [PubMed - indexed for MEDLINE]Related articles

Inferring gene regulatory networks by integrating static and dynamic data.

Ferrazzi F, Magni P, Sacchi L, Nuzzo A, Petrovic U, Bellazzi R.

Int J Med Inform. 2007 Dec;76 Suppl 3:S462-75. Epub 2007 Sep 6.PMID: 17825607 [PubMed - indexed for MEDLINE]Related articles