BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

129 related articles for article (PubMed ID: 26315904)

  • 1. LIBRA: LIgand Binding site Recognition Application.
    Hung le V; Caprari S; Bizai M; Toti D; Polticelli F
    Bioinformatics; 2015 Dec; 31(24):4020-2. PubMed ID: 26315904
    [TBL] [Abstract][Full Text] [Related]  

  • 2. ASSIST: a fast versatile local structural comparison tool.
    Caprari S; Toti D; Viet Hung L; Di Stefano M; Polticelli F
    Bioinformatics; 2014 Apr; 30(7):1022-4. PubMed ID: 24243934
    [TBL] [Abstract][Full Text] [Related]  

  • 3. LIBRA-WA: a web application for ligand binding site detection and protein function recognition.
    Toti D; Viet Hung L; Tortosa V; Brandi V; Polticelli F
    Bioinformatics; 2018 Mar; 34(5):878-880. PubMed ID: 29126218
    [TBL] [Abstract][Full Text] [Related]  

  • 4. SABRE: ligand/structure-based virtual screening approach using consensus molecular-shape pattern recognition.
    Wei NN; Hamza A
    J Chem Inf Model; 2014 Jan; 54(1):338-46. PubMed ID: 24328054
    [TBL] [Abstract][Full Text] [Related]  

  • 5. A comparative assessment of ranking accuracies of conventional and machine-learning-based scoring functions for protein-ligand binding affinity prediction.
    Ashtawy HM; Mahapatra NR
    IEEE/ACM Trans Comput Biol Bioinform; 2012; 9(5):1301-13. PubMed ID: 22411892
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Preparation and refinement of model protein-ligand complexes.
    Orry AJ; Abagyan R
    Methods Mol Biol; 2012; 857():351-73. PubMed ID: 22323230
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Comparison of protein active site structures for functional annotation of proteins and drug design.
    Powers R; Copeland JC; Germer K; Mercier KA; Ramanathan V; Revesz P
    Proteins; 2006 Oct; 65(1):124-35. PubMed ID: 16862592
    [TBL] [Abstract][Full Text] [Related]  

  • 8. mRAISE: an alternative algorithmic approach to ligand-based virtual screening.
    von Behren MM; Bietz S; Nittinger E; Rarey M
    J Comput Aided Mol Des; 2016 Aug; 30(8):583-94. PubMed ID: 27565795
    [TBL] [Abstract][Full Text] [Related]  

  • 9. A web server for analysis, comparison and prediction of protein ligand binding sites.
    Singh H; Srivastava HK; Raghava GP
    Biol Direct; 2016 Mar; 11(1):14. PubMed ID: 27016210
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Detection of 3D atomic similarities and their use in the discrimination of small molecule protein-binding sites.
    Najmanovich R; Kurbatova N; Thornton J
    Bioinformatics; 2008 Aug; 24(16):i105-11. PubMed ID: 18689810
    [TBL] [Abstract][Full Text] [Related]  

  • 11. BSAlign: a rapid graph-based algorithm for detecting ligand-binding sites in protein structures.
    Aung Z; Tong JC
    Genome Inform; 2008; 21():65-76. PubMed ID: 19425148
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Ligand-binding site prediction of proteins based on known fragment-fragment interactions.
    Kasahara K; Kinoshita K; Takagi T
    Bioinformatics; 2010 Jun; 26(12):1493-9. PubMed ID: 20472546
    [TBL] [Abstract][Full Text] [Related]  

  • 13. A searchable database for comparing protein-ligand binding sites for the analysis of structure-function relationships.
    Gold ND; Jackson RM
    J Chem Inf Model; 2006; 46(2):736-42. PubMed ID: 16563004
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Deciphering common recognition principles of nucleoside mono/di and tri-phosphates binding in diverse proteins via structural matching of their binding sites.
    Bhagavat R; Srinivasan N; Chandra N
    Proteins; 2017 Sep; 85(9):1699-1712. PubMed ID: 28547747
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Efficient virtual screening using multiple protein conformations described as negative images of the ligand-binding site.
    Virtanen SI; Pentikäinen OT
    J Chem Inf Model; 2010 Jun; 50(6):1005-11. PubMed ID: 20504004
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Q-SiteFinder: an energy-based method for the prediction of protein-ligand binding sites.
    Laurie AT; Jackson RM
    Bioinformatics; 2005 May; 21(9):1908-16. PubMed ID: 15701681
    [TBL] [Abstract][Full Text] [Related]  

  • 17. PLI: a web-based tool for the comparison of protein-ligand interactions observed on PDB structures.
    Gallina AM; Bisignano P; Bergamino M; Bordo D
    Bioinformatics; 2013 Feb; 29(3):395-7. PubMed ID: 23196990
    [TBL] [Abstract][Full Text] [Related]  

  • 18. SitesBase: a database for structure-based protein-ligand binding site comparisons.
    Gold ND; Jackson RM
    Nucleic Acids Res; 2006 Jan; 34(Database issue):D231-4. PubMed ID: 16381853
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Ligand-binding site prediction using ligand-interacting and binding site-enriched protein triangles.
    Xie ZR; Hwang MJ
    Bioinformatics; 2012 Jun; 28(12):1579-85. PubMed ID: 22495747
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Recognizing metal and acid radical ion-binding sites by integrating ab initio modeling with template-based transferals.
    Hu X; Dong Q; Yang J; Zhang Y
    Bioinformatics; 2016 Nov; 32(21):3260-3269. PubMed ID: 27378301
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 7.