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477 related items for PubMed ID: 21679746

  • 1. Folding small proteins via annealing stochastic approximation Monte Carlo.
    Cheon S, Liang F.
    Biosystems; 2011 Sep; 105(3):243-9. PubMed ID: 21679746
    [Abstract] [Full Text] [Related]

  • 2. Bayesian phylogeny analysis via stochastic approximation Monte Carlo.
    Cheon S, Liang F.
    Mol Phylogenet Evol; 2009 Nov; 53(2):394-403. PubMed ID: 19589389
    [Abstract] [Full Text] [Related]

  • 3. Path ensembles and path sampling in nonequilibrium stochastic systems.
    Harland B, Sun SX.
    J Chem Phys; 2007 Sep 14; 127(10):104103. PubMed ID: 17867733
    [Abstract] [Full Text] [Related]

  • 4. Genetic algorithms for protein folding simulations.
    Unger R, Moult J.
    J Mol Biol; 1993 May 05; 231(1):75-81. PubMed ID: 8496967
    [Abstract] [Full Text] [Related]

  • 5. Gibbs adsorption isotherm combined with Monte Carlo sampling to see action of cosolutes on protein folding.
    Harries D, Parsegian VA.
    Proteins; 2004 Nov 01; 57(2):311-21. PubMed ID: 15340918
    [Abstract] [Full Text] [Related]

  • 6. The elastic net algorithm and protein structure prediction.
    Ball KD, Erman B, Dill KA.
    J Comput Chem; 2002 Jan 15; 23(1):77-83. PubMed ID: 11913391
    [Abstract] [Full Text] [Related]

  • 7. Fitting Lorentzian peaks with evolutionary genetic algorithm based on stochastic search procedure.
    Karakaplan M.
    Anal Chim Acta; 2007 Mar 28; 587(2):235-9. PubMed ID: 17386778
    [Abstract] [Full Text] [Related]

  • 8. An algorithm for prediction of structural elements in small proteins.
    Kolinski A, Skolnick J, Godzik A.
    Pac Symp Biocomput; 1996 Mar 28; ():446-60. PubMed ID: 9390250
    [Abstract] [Full Text] [Related]

  • 9. Lattice models of peptide aggregation: evaluation of conformational search algorithms.
    Oakley MT, Garibaldi JM, Hirst JD.
    J Comput Chem; 2005 Nov 30; 26(15):1638-46. PubMed ID: 16170797
    [Abstract] [Full Text] [Related]

  • 10. Docking macromolecules with flexible segments.
    Bastard K, Thureau A, Lavery R, Prévost C.
    J Comput Chem; 2003 Nov 30; 24(15):1910-20. PubMed ID: 14515373
    [Abstract] [Full Text] [Related]

  • 11. Local moves: an efficient algorithm for simulation of protein folding.
    Elofsson A, Le Grand SM, Eisenberg D.
    Proteins; 1995 Sep 30; 23(1):73-82. PubMed ID: 8539252
    [Abstract] [Full Text] [Related]

  • 12. Phylogenetic tree construction using sequential stochastic approximation Monte Carlo.
    Cheon S, Liang F.
    Biosystems; 2008 Jan 30; 91(1):94-107. PubMed ID: 17889993
    [Abstract] [Full Text] [Related]

  • 13. 'On-the-fly' or 'generate-first' modeling?
    Blinov ML, Faeder JR, Yang J, Goldstein B, Hlavacek WS.
    Nat Biotechnol; 2005 Nov 30; 23(11):1344-5; author reply 1345. PubMed ID: 16273053
    [No Abstract] [Full Text] [Related]

  • 14. Annealing contour Monte Carlo algorithm for structure optimization in an off-lattice protein model.
    Liang F.
    J Chem Phys; 2004 Apr 08; 120(14):6756-63. PubMed ID: 15267570
    [Abstract] [Full Text] [Related]

  • 15. Protein folding by motion planning.
    Thomas S, Song G, Amato NM.
    Phys Biol; 2005 Nov 09; 2(4):S148-55. PubMed ID: 16280620
    [Abstract] [Full Text] [Related]

  • 16. Monte Carlo simulation of protein folding in the presence of residue-specific binding sites.
    Rossinsky E, Srebnik S.
    Biopolymers; 2005 Dec 05; 79(5):259-68. PubMed ID: 16134169
    [Abstract] [Full Text] [Related]

  • 17. Protein conformational transitions coupled to binding in molecular recognition of unstructured proteins: deciphering the effect of intermolecular interactions on computational structure prediction of the p27Kip1 protein bound to the cyclin A-cyclin-dependent kinase 2 complex.
    Verkhivker GM.
    Proteins; 2005 Feb 15; 58(3):706-16. PubMed ID: 15609350
    [Abstract] [Full Text] [Related]

  • 18. Stochastic modeling of cellular networks.
    Stewart-Ornstein J, El-Samad H.
    Methods Cell Biol; 2012 Feb 15; 110():111-37. PubMed ID: 22482947
    [Abstract] [Full Text] [Related]

  • 19. A gradient-directed Monte Carlo approach for protein design.
    Hu X, Hu H, Beratan DN, Yang W.
    J Comput Chem; 2010 Aug 15; 31(11):2164-8. PubMed ID: 20186860
    [Abstract] [Full Text] [Related]

  • 20. Protein folding simulations of 2D HP model by the genetic algorithm based on optimal secondary structures.
    Huang C, Yang X, He Z.
    Comput Biol Chem; 2010 Jun 15; 34(3):137-42. PubMed ID: 20627698
    [Abstract] [Full Text] [Related]

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