These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

281 related articles for article (PubMed ID: 18725950)

  • 1. A feature-based approach to modeling protein-DNA interactions.
    Sharon E; Lubliner S; Segal E
    PLoS Comput Biol; 2008 Aug; 4(8):e1000154. PubMed ID: 18725950
    [TBL] [Abstract][Full Text] [Related]  

  • 2. High resolution models of transcription factor-DNA affinities improve in vitro and in vivo binding predictions.
    Agius P; Arvey A; Chang W; Noble WS; Leslie C
    PLoS Comput Biol; 2010 Sep; 6(9):. PubMed ID: 20838582
    [TBL] [Abstract][Full Text] [Related]  

  • 3. A biophysical model for analysis of transcription factor interaction and binding site arrangement from genome-wide binding data.
    He X; Chen CC; Hong F; Fang F; Sinha S; Ng HH; Zhong S
    PLoS One; 2009 Dec; 4(12):e8155. PubMed ID: 19956545
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Identification of context-dependent motifs by contrasting ChIP binding data.
    Mason MJ; Plath K; Zhou Q
    Bioinformatics; 2010 Nov; 26(22):2826-32. PubMed ID: 20870645
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Informative priors based on transcription factor structural class improve de novo motif discovery.
    Narlikar L; Gordân R; Ohler U; Hartemink AJ
    Bioinformatics; 2006 Jul; 22(14):e384-92. PubMed ID: 16873497
    [TBL] [Abstract][Full Text] [Related]  

  • 6. BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data.
    Kähärä J; Lähdesmäki H
    Bioinformatics; 2015 Sep; 31(17):2852-9. PubMed ID: 25957350
    [TBL] [Abstract][Full Text] [Related]  

  • 7. MACE: model based analysis of ChIP-exo.
    Wang L; Chen J; Wang C; Uusküla-Reimand L; Chen K; Medina-Rivera A; Young EJ; Zimmermann MT; Yan H; Sun Z; Zhang Y; Wu ST; Huang H; Wilson MD; Kocher JP; Li W
    Nucleic Acids Res; 2014 Nov; 42(20):e156. PubMed ID: 25249628
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Quantitative modeling of transcription factor binding specificities using DNA shape.
    Zhou T; Shen N; Yang L; Abe N; Horton J; Mann RS; Bussemaker HJ; Gordân R; Rohs R
    Proc Natl Acad Sci U S A; 2015 Apr; 112(15):4654-9. PubMed ID: 25775564
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Theoretical and empirical quality assessment of transcription factor-binding motifs.
    Medina-Rivera A; Abreu-Goodger C; Thomas-Chollier M; Salgado H; Collado-Vides J; van Helden J
    Nucleic Acids Res; 2011 Feb; 39(3):808-24. PubMed ID: 20923783
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Non-targeted transcription factors motifs are a systemic component of ChIP-seq datasets.
    Worsley Hunt R; Wasserman WW
    Genome Biol; 2014 Jul; 15(7):412. PubMed ID: 25070602
    [TBL] [Abstract][Full Text] [Related]  

  • 11. ChIPulate: A comprehensive ChIP-seq simulation pipeline.
    Datta V; Hannenhalli S; Siddharthan R
    PLoS Comput Biol; 2019 Mar; 15(3):e1006921. PubMed ID: 30897079
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Inferring transcription factor complexes from ChIP-seq data.
    Whitington T; Frith MC; Johnson J; Bailey TL
    Nucleic Acids Res; 2011 Aug; 39(15):e98. PubMed ID: 21602262
    [TBL] [Abstract][Full Text] [Related]  

  • 13. LASAGNA: a novel algorithm for transcription factor binding site alignment.
    Lee C; Huang CH
    BMC Bioinformatics; 2013 Mar; 14():108. PubMed ID: 23522376
    [TBL] [Abstract][Full Text] [Related]  

  • 14. MixChIP: a probabilistic method for cell type specific protein-DNA binding analysis.
    Rautio S; Lähdesmäki H
    BMC Bioinformatics; 2015 Dec; 16():413. PubMed ID: 26703974
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Sequence features of DNA binding sites reveal structural class of associated transcription factor.
    Narlikar L; Hartemink AJ
    Bioinformatics; 2006 Jan; 22(2):157-63. PubMed ID: 16267080
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Nonconsensus Protein Binding to Repetitive DNA Sequence Elements Significantly Affects Eukaryotic Genomes.
    Afek A; Cohen H; Barber-Zucker S; Gordân R; Lukatsky DB
    PLoS Comput Biol; 2015 Aug; 11(8):e1004429. PubMed ID: 26285121
    [TBL] [Abstract][Full Text] [Related]  

  • 17. T-KDE: a method for genome-wide identification of constitutive protein binding sites from multiple ChIP-seq data sets.
    Li Y; Umbach DM; Li L
    BMC Genomics; 2014 Jan; 15():27. PubMed ID: 24428924
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Integrated assessment and prediction of transcription factor binding.
    Beyer A; Workman C; Hollunder J; Radke D; Möller U; Wilhelm T; Ideker T
    PLoS Comput Biol; 2006 Jun; 2(6):e70. PubMed ID: 16789814
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Learning probabilistic protein-DNA recognition codes from DNA-binding specificities using structural mappings.
    Wetzel JL; Zhang K; Singh M
    Genome Res; 2022 Sep; 32(9):1776-1786. PubMed ID: 36123148
    [TBL] [Abstract][Full Text] [Related]  

  • 20. DNA Shape Features Improve Transcription Factor Binding Site Predictions In Vivo.
    Mathelier A; Xin B; Chiu TP; Yang L; Rohs R; Wasserman WW
    Cell Syst; 2016 Sep; 3(3):278-286.e4. PubMed ID: 27546793
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 15.