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Journal Abstract Search

193 related items for PubMed ID: 25708259

  • 1. Genome-wide analysis of transcription factor binding sites and their characteristic DNA structures.
    Dai Z, Guo D, Dai X, Xiong Y.
    BMC Genomics; 2015; 16 Suppl 3(Suppl 3):S8. PubMed ID: 25708259
    [Abstract] [Full Text] [Related]

  • 2. A computational "genome walk" technique to identify regulatory interactions in gene networks.
    Wagner A.
    Pac Symp Biocomput; 1998; ():264-78. PubMed ID: 9697188
    [Abstract] [Full Text] [Related]

  • 3. Nucleosomal context of binding sites influences transcription factor binding affinity and gene regulation.
    Dai Z, Dai X, Xiang Q, Feng J.
    Genomics Proteomics Bioinformatics; 2009 Dec; 7(4):155-62. PubMed ID: 20172488
    [Abstract] [Full Text] [Related]

  • 4. PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny.
    Siddharthan R, Siggia ED, van Nimwegen E.
    PLoS Comput Biol; 2005 Dec; 1(7):e67. PubMed ID: 16477324
    [Abstract] [Full Text] [Related]

  • 5. Computational inference of transcriptional regulatory networks from expression profiling and transcription factor binding site identification.
    Haverty PM, Hansen U, Weng Z.
    Nucleic Acids Res; 2004 Dec; 32(1):179-88. PubMed ID: 14704355
    [Abstract] [Full Text] [Related]

  • 6. Genome-wide prediction and characterization of interactions between transcription factors in Saccharomyces cerevisiae.
    Yu X, Lin J, Masuda T, Esumi N, Zack DJ, Qian J.
    Nucleic Acids Res; 2006 Dec; 34(3):917-27. PubMed ID: 16464824
    [Abstract] [Full Text] [Related]

  • 7. Molecular and structural considerations of TF-DNA binding for the generation of biologically meaningful and accurate phylogenetic footprinting analysis: the LysR-type transcriptional regulator family as a study model.
    Oliver P, Peralta-Gil M, Tabche ML, Merino E.
    BMC Genomics; 2016 Aug 27; 17(1):686. PubMed ID: 27567672
    [Abstract] [Full Text] [Related]

  • 8. Analysis of the association between transcription factor binding site variants and distinct accompanying regulatory motifs in yeast.
    Chiang S, Swamy KB, Hsu TW, Tsai ZT, Lu HH, Wang D, Tsai HK.
    Gene; 2012 Jan 10; 491(2):237-45. PubMed ID: 21963994
    [Abstract] [Full Text] [Related]

  • 9. Assessing transcription factor motif drift from noisy decoy sequences.
    Reddy TE, DeLisi C, Shakhnovich BE.
    Genome Inform; 2005 Jan 10; 16(1):59-67. PubMed ID: 16362907
    [Abstract] [Full Text] [Related]

  • 10. Integrating genomic data to predict transcription factor binding.
    Holloway DT, Kon M, DeLisi C.
    Genome Inform; 2005 Jan 10; 16(1):83-94. PubMed ID: 16362910
    [Abstract] [Full Text] [Related]

  • 11. Genome-wide analysis of the cis-regulatory modules of divergent gene pairs in yeast.
    Su CH, Shih CH, Chang TH, Tsai HK.
    Genomics; 2010 Dec 10; 96(6):352-61. PubMed ID: 20826206
    [Abstract] [Full Text] [Related]

  • 12. Ceres: software for the integrated analysis of transcription factor binding sites and nucleosome positions in Saccharomyces cerevisiae.
    Morris RT, O'Connor TR, Wyrick JJ.
    Bioinformatics; 2010 Jan 15; 26(2):168-74. PubMed ID: 19959498
    [Abstract] [Full Text] [Related]

  • 13. Computational identification of transcription factor binding sites via a transcription-factor-centric clustering (TFCC) algorithm.
    Zhu Z, Pilpel Y, Church GM.
    J Mol Biol; 2002 Apr 19; 318(1):71-81. PubMed ID: 12054769
    [Abstract] [Full Text] [Related]

  • 14. Development of a novel oligonucleotide array-based transcription factor assay platform for genome-wide active transcription factor profiling in Saccharomyces cerevisiae.
    Zhao Y, Shao W, Wei H, Qiao J, Lu Y, Sun Y, Mitchelson K, Cheng J, Zhou Y.
    J Proteome Res; 2008 Mar 19; 7(3):1315-25. PubMed ID: 18220337
    [Abstract] [Full Text] [Related]

  • 15. Identifying cooperative transcription factors in yeast using multiple data sources.
    Lai FJ, Jhu MH, Chiu CC, Huang YM, Wu WS.
    BMC Syst Biol; 2014 Mar 19; 8 Suppl 5(Suppl 5):S2. PubMed ID: 25559499
    [Abstract] [Full Text] [Related]

  • 16. Position specific variation in the rate of evolution in transcription factor binding sites.
    Moses AM, Chiang DY, Kellis M, Lander ES, Eisen MB.
    BMC Evol Biol; 2003 Aug 28; 3():19. PubMed ID: 12946282
    [Abstract] [Full Text] [Related]

  • 17. Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules.
    Acevedo-Luna N, Mariño-Ramírez L, Halbert A, Hansen U, Landsman D, Spouge JL.
    BMC Bioinformatics; 2016 Nov 21; 17(1):479. PubMed ID: 27871221
    [Abstract] [Full Text] [Related]

  • 18.
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  • 19. Genome-wide inference of transcription factor-DNA binding specificity in cell regeneration using a combination strategy.
    Wang X, Zhang A, Ren W, Chen C, Dong J.
    Chem Biol Drug Des; 2012 Nov 21; 80(5):734-44. PubMed ID: 22863142
    [Abstract] [Full Text] [Related]

  • 20. Contribution of Sequence Motif, Chromatin State, and DNA Structure Features to Predictive Models of Transcription Factor Binding in Yeast.
    Tsai ZT, Shiu SH, Tsai HK.
    PLoS Comput Biol; 2015 Aug 21; 11(8):e1004418. PubMed ID: 26291518
    [Abstract] [Full Text] [Related]

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