BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

113 related articles for article (PubMed ID: 26081193)

  • 1. A Biophysical Approach to Predicting Protein-DNA Binding Energetics.
    Locke G; Morozov AV
    Genetics; 2015 Aug; 200(4):1349-61. PubMed ID: 26081193
    [TBL] [Abstract][Full Text] [Related]  

  • 2. 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
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Precise physical models of protein-DNA interaction from high-throughput data.
    Kinney JB; Tkacik G; Callan CG
    Proc Natl Acad Sci U S A; 2007 Jan; 104(2):501-6. PubMed ID: 17197415
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Prediction of TF target sites based on atomistic models of protein-DNA complexes.
    Angarica VE; PĂ©rez AG; Vasconcelos AT; Collado-Vides J; Contreras-Moreira B
    BMC Bioinformatics; 2008 Oct; 9():436. PubMed ID: 18922190
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Quality versus accuracy: result of a reanalysis of protein-binding microarrays from the DREAM5 challenge by using BayesPI2 including dinucleotide interdependence.
    Wang J
    BMC Bioinformatics; 2014 Aug; 15(1):289. PubMed ID: 25158938
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Building accurate sequence-to-affinity models from high-throughput in vitro protein-DNA binding data using FeatureREDUCE.
    Riley TR; Lazarovici A; Mann RS; Bussemaker HJ
    Elife; 2015 Dec; 4():. PubMed ID: 26701911
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Protein-DNA binding specificity predictions with structural models.
    Morozov AV; Havranek JJ; Baker D; Siggia ED
    Nucleic Acids Res; 2005; 33(18):5781-98. PubMed ID: 16246914
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Protein binding microarrays (PBMs) for rapid, high-throughput characterization of the sequence specificities of DNA binding proteins.
    Berger MF; Bulyk ML
    Methods Mol Biol; 2006; 338():245-60. PubMed ID: 16888363
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Predicting protein-DNA binding free energy change upon missense mutations using modified MM/PBSA approach: SAMPDI webserver.
    Peng Y; Sun L; Jia Z; Li L; Alexov E
    Bioinformatics; 2018 Mar; 34(5):779-786. PubMed ID: 29091991
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Free-energy component analysis of 40 protein-DNA complexes: a consensus view on the thermodynamics of binding at the molecular level.
    Jayaram B; McConnell K; Dixit SB; Das A; Beveridge DL
    J Comput Chem; 2002 Jan; 23(1):1-14. PubMed ID: 11913374
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Physical constraints and functional characteristics of transcription factor-DNA interaction.
    Gerland U; Moroz JD; Hwa T
    Proc Natl Acad Sci U S A; 2002 Sep; 99(19):12015-20. PubMed ID: 12218191
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Protein binding microarrays for the characterization of DNA-protein interactions.
    Bulyk ML
    Adv Biochem Eng Biotechnol; 2007; 104():65-85. PubMed ID: 17290819
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Toward an atomistic model for predicting transcription-factor binding sites.
    Endres RG; Schulthess TC; Wingreen NS
    Proteins; 2004 Nov; 57(2):262-8. PubMed ID: 15340913
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Quantitative evaluation of protein-DNA interactions using an optimized knowledge-based potential.
    Liu Z; Mao F; Guo JT; Yan B; Wang P; Qu Y; Xu Y
    Nucleic Acids Res; 2005; 33(2):546-58. PubMed ID: 15673715
    [TBL] [Abstract][Full Text] [Related]  

  • 15. The energetics of HMG box interactions with DNA: thermodynamics of the DNA binding of the HMG box from mouse sox-5.
    Privalov PL; Jelesarov I; Read CM; Dragan AI; Crane-Robinson C
    J Mol Biol; 1999 Dec; 294(4):997-1013. PubMed ID: 10588902
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Computational structural analysis: multiple proteins bound to DNA.
    Tomovic A; Oakeley EJ
    PLoS One; 2008 Sep; 3(9):e3243. PubMed ID: 18802470
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Quantitative models of the mechanisms that control genome-wide patterns of animal transcription factor binding.
    Kaplan T; Biggin MD
    Methods Cell Biol; 2012; 110():263-83. PubMed ID: 22482953
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Energetics of sequence-specific protein-DNA association: computational analysis of integrase Tn916 binding to its target DNA.
    Gorfe AA; Jelesarov I
    Biochemistry; 2003 Oct; 42(40):11568-76. PubMed ID: 14529266
    [TBL] [Abstract][Full Text] [Related]  

  • 19. bPeaks: a bioinformatics tool to detect transcription factor binding sites from ChIPseq data in yeasts and other organisms with small genomes.
    Merhej J; Frigo A; Le Crom S; Camadro JM; Devaux F; Lelandais G
    Yeast; 2014 Oct; 31(10):375-91. PubMed ID: 25041923
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Learning protein-DNA interaction landscapes by integrating experimental data through computational models.
    Zhong J; Wasson T; Hartemink AJ
    Bioinformatics; 2014 Oct; 30(20):2868-74. PubMed ID: 24974204
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 6.