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Journal Abstract Search

93 related items for PubMed ID: 22130893

  • 1. JAMIE: A software tool for jointly analyzing multiple ChIP-chip experiments.
    Wu H, Ji H.
    Methods Mol Biol; 2012; 802():363-75. PubMed ID: 22130893
    [Abstract] [Full Text] [Related]

  • 2. Computational analysis and modeling of genome-scale avidity distribution of transcription factor binding sites in chip-pet experiments.
    Kuznetsov VA, Orlov YL, Wei CL, Ruan Y.
    Genome Inform; 2007; 19():83-94. PubMed ID: 18546507
    [Abstract] [Full Text] [Related]

  • 3. JAMIE: joint analysis of multiple ChIP-chip experiments.
    Wu H, Ji H.
    Bioinformatics; 2010 Aug 01; 26(15):1864-70. PubMed ID: 20551135
    [Abstract] [Full Text] [Related]

  • 4. rMAT--an R/Bioconductor package for analyzing ChIP-chip experiments.
    Droit A, Cheung C, Gottardo R.
    Bioinformatics; 2010 Mar 01; 26(5):678-9. PubMed ID: 20089513
    [Abstract] [Full Text] [Related]

  • 5. ChIP-chip: data, model, and analysis.
    Zheng M, Barrera LO, Ren B, Wu YN.
    Biometrics; 2007 Sep 01; 63(3):787-96. PubMed ID: 17825010
    [Abstract] [Full Text] [Related]

  • 6. An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments.
    Liu XS, Brutlag DL, Liu JS.
    Nat Biotechnol; 2002 Aug 01; 20(8):835-9. PubMed ID: 12101404
    [Abstract] [Full Text] [Related]

  • 7. Analyzing ChIP-seq data: preprocessing, normalization, differential identification, and binding pattern characterization.
    Taslim C, Huang K, Huang T, Lin S.
    Methods Mol Biol; 2012 Aug 01; 802():275-91. PubMed ID: 22130887
    [Abstract] [Full Text] [Related]

  • 8. Modeling and analysis of ChIP-chip experiments.
    Gottardo R.
    Methods Mol Biol; 2009 Aug 01; 567():133-43. PubMed ID: 19588090
    [Abstract] [Full Text] [Related]

  • 9. High-resolution computational models of genome binding events.
    Qi Y, Rolfe A, MacIsaac KD, Gerber GK, Pokholok D, Zeitlinger J, Danford T, Dowell RD, Fraenkel E, Jaakkola TS, Young RA, Gifford DK.
    Nat Biotechnol; 2006 Aug 01; 24(8):963-70. PubMed ID: 16900145
    [Abstract] [Full Text] [Related]

  • 10. The analysis of ChIP-Seq data.
    Ma W, Wong WH.
    Methods Enzymol; 2011 Aug 01; 497():51-73. PubMed ID: 21601082
    [Abstract] [Full Text] [Related]

  • 11. A supervised hidden markov model framework for efficiently segmenting tiling array data in transcriptional and chIP-chip experiments: systematically incorporating validated biological knowledge.
    Du J, Rozowsky JS, Korbel JO, Zhang ZD, Royce TE, Schultz MH, Snyder M, Gerstein M.
    Bioinformatics; 2006 Dec 15; 22(24):3016-24. PubMed ID: 17038339
    [Abstract] [Full Text] [Related]

  • 12.
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  • 13. Assessing the need for sequence-based normalization in tiling microarray experiments.
    Royce TE, Rozowsky JS, Gerstein MB.
    Bioinformatics; 2007 Apr 15; 23(8):988-97. PubMed ID: 17387113
    [Abstract] [Full Text] [Related]

  • 14. A signal-noise model for significance analysis of ChIP-seq with negative control.
    Xu H, Handoko L, Wei X, Ye C, Sheng J, Wei CL, Lin F, Sung WK.
    Bioinformatics; 2010 May 01; 26(9):1199-204. PubMed ID: 20371496
    [Abstract] [Full Text] [Related]

  • 15. Genome-wide mapping of protein-DNA interaction by chromatin immunoprecipitation and DNA microarray hybridization (ChIP-chip). Part B: ChIP-chip data analysis.
    Göbel U, Reimer J, Turck F.
    Methods Mol Biol; 2010 May 01; 631():161-84. PubMed ID: 20204875
    [Abstract] [Full Text] [Related]

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  • 17. A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data.
    Macisaac KD, Gordon DB, Nekludova L, Odom DT, Schreiber J, Gifford DK, Young RA, Fraenkel E.
    Bioinformatics; 2006 Feb 15; 22(4):423-9. PubMed ID: 16332710
    [Abstract] [Full Text] [Related]

  • 18. Visualizing and characterizing in vivo DNA-binding events and direct target genes of plant transcription factors.
    Muiño JM, Angenent GC, Kaufmann K.
    Methods Mol Biol; 2011 Feb 15; 754():293-305. PubMed ID: 21720960
    [Abstract] [Full Text] [Related]

  • 19. PICS: probabilistic inference for ChIP-seq.
    Zhang X, Robertson G, Krzywinski M, Ning K, Droit A, Jones S, Gottardo R.
    Biometrics; 2011 Mar 15; 67(1):151-63. PubMed ID: 20528864
    [Abstract] [Full Text] [Related]

  • 20. Genome-wide epigenetic analysis of human pluripotent stem cells by ChIP and ChIP-Seq.
    Hitchler MJ, Rice JC.
    Methods Mol Biol; 2011 Mar 15; 767():253-67. PubMed ID: 21822881
    [Abstract] [Full Text] [Related]

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