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    Results: 1 to 20 of 152

    1.

    Identification of yeast transcriptional regulation networks using multivariate random forests.

    Xiao Y, Segal MR.

    PLoS Comput Biol. 2009 Jun;5(6):e1000414. Epub 2009 Jun 19.PMID: 19543377 [PubMed - indexed for MEDLINE]Related articlesFree article

    2.

    Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data.

    Gao F, Foat BC, Bussemaker HJ.

    BMC Bioinformatics. 2004 Mar 18;5:31.PMID: 15113405 [PubMed - indexed for MEDLINE]Related articlesFree article

    3.

    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

    4.

    Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle.

    Wu WS, Li WH, Chen BS.

    BMC Bioinformatics. 2006 Sep 29;7:421.PMID: 17010188 [PubMed - indexed for MEDLINE]Related articlesFree article

    5.

    BRNI: Modular analysis of transcriptional regulatory programs.

    Nachman I, Regev A.

    BMC Bioinformatics. 2009 May 20;10:155.PMID: 19457258 [PubMed - indexed for MEDLINE]Related articlesFree article

    6.

    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

    7.

    Dynamical remodeling of the transcriptome during short-term anaerobiosis in Saccharomyces cerevisiae: differential response and role of Msn2 and/or Msn4 and other factors in galactose and glucose media.

    Lai LC, Kosorukoff AL, Burke PV, Kwast KE.

    Mol Cell Biol. 2005 May;25(10):4075-91.PMID: 15870279 [PubMed - indexed for MEDLINE]Related articlesFree article

    8.

    Transcriptional regulatory networks in Saccharomyces cerevisiae.

    Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA.

    Science. 2002 Oct 25;298(5594):799-804.PMID: 12399584 [PubMed - indexed for MEDLINE]Related articlesFree article

    9.

    Genome-wide co-occurrence of promoter elements reveals a cis-regulatory cassette of rRNA transcription motifs in Saccharomyces cerevisiae.

    Sudarsanam P, Pilpel Y, Church GM.

    Genome Res. 2002 Nov;12(11):1723-31.PMID: 12421759 [PubMed - indexed for MEDLINE]Related articlesFree article

    10.

    Identifying combinatorial regulation of transcription factors and binding motifs.

    Kato M, Hata N, Banerjee N, Futcher B, Zhang MQ.

    Genome Biol. 2004;5(8):R56. Epub 2004 Jul 28.PMID: 15287978 [PubMed - indexed for MEDLINE]Related articlesFree article

    11.

    Interacting models of cooperative gene regulation.

    Das D, Banerjee N, Zhang MQ.

    Proc Natl Acad Sci U S A. 2004 Nov 16;101(46):16234-9. Epub 2004 Nov 8.PMID: 15534222 [PubMed - indexed for MEDLINE]Related articlesFree article

    12.

    Combining sequence and time series expression data to learn transcriptional modules.

    Kundaje A, Middendorf M, Gao F, Wiggins C, Leslie C.

    IEEE/ACM Trans Comput Biol Bioinform. 2005 Jul-Sep;2(3):194-202.PMID: 17044183 [PubMed - indexed for MEDLINE]Related articles

    13.

    Identifying cooperativity among transcription factors controlling the cell cycle in yeast.

    Banerjee N, Zhang MQ.

    Nucleic Acids Res. 2003 Dec 1;31(23):7024-31.PMID: 14627835 [PubMed - indexed for MEDLINE]Related articlesFree article

    14.

    Genomic analysis of regulatory network dynamics reveals large topological changes.

    Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M.

    Nature. 2004 Sep 16;431(7006):308-12.PMID: 15372033 [PubMed - indexed for MEDLINE]Related articles

    15.

    Regulatory element detection using correlation with expression.

    Bussemaker HJ, Li H, Siggia ED.

    Nat Genet. 2001 Feb;27(2):167-71.PMID: 11175784 [PubMed - indexed for MEDLINE]Related articles

    16.

    High-resolution DNA-binding specificity analysis of yeast transcription factors.

    Zhu C, Byers KJ, McCord RP, Shi Z, Berger MF, Newburger DE, Saulrieta K, Smith Z, Shah MV, Radhakrishnan M, Philippakis AA, Hu Y, De Masi F, Pacek M, Rolfs A, Murthy T, Labaer J, Bulyk ML.

    Genome Res. 2009 Apr;19(4):556-66. Epub 2009 Jan 21.PMID: 19158363 [PubMed - indexed for MEDLINE]Related articlesFree article

    17.

    Inference of combinatorial regulation in yeast transcriptional networks: a case study of sporulation.

    Wang W, Cherry JM, Nochomovitz Y, Jolly E, Botstein D, Li H.

    Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):1998-2003. Epub 2005 Jan 31.PMID: 15684073 [PubMed - indexed for MEDLINE]Related articlesFree article

    18.

    Identification of cell cycle-regulated genes in fission yeast.

    Peng X, Karuturi RK, Miller LD, Lin K, Jia Y, Kondu P, Wang L, Wong LS, Liu ET, Balasubramanian MK, Liu J.

    Mol Biol Cell. 2005 Mar;16(3):1026-42. Epub 2004 Dec 22.PMID: 15616197 [PubMed - indexed for MEDLINE]Related articlesFree article

    19.

    Reconstructing dynamic regulatory maps.

    Ernst J, Vainas O, Harbison CT, Simon I, Bar-Joseph Z.

    Mol Syst Biol. 2007;3:74. Epub 2007 Jan 16.PMID: 17224918 [PubMed - indexed for MEDLINE]Related articlesFree article

    20.

    Statistical inference of transcriptional module-based gene networks from time course gene expression profiles by using state space models.

    Hirose O, Yoshida R, Imoto S, Yamaguchi R, Higuchi T, Charnock-Jones DS, Print C, Miyano S.

    Bioinformatics. 2008 Apr 1;24(7):932-42. Epub 2008 Feb 21.PMID: 18292116 [PubMed - indexed for MEDLINE]Related articlesFree article

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