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Journal Abstract Search

690 related items for PubMed ID: 11455545

  • 1. Generalized-ensemble algorithms for molecular simulations of biopolymers.
    Mitsutake A, Sugita Y, Okamoto Y.
    Biopolymers; 2001; 60(2):96-123. PubMed ID: 11455545
    [Abstract] [Full Text] [Related]

  • 2. Generalized-ensemble algorithms: enhanced sampling techniques for Monte Carlo and molecular dynamics simulations.
    Okamoto Y.
    J Mol Graph Model; 2004 May; 22(5):425-39. PubMed ID: 15099838
    [Abstract] [Full Text] [Related]

  • 3. Enhanced sampling algorithms.
    Mitsutake A, Mori Y, Okamoto Y.
    Methods Mol Biol; 2013 May; 924():153-95. PubMed ID: 23034749
    [Abstract] [Full Text] [Related]

  • 4. Multidimensional generalized-ensemble algorithms for complex systems.
    Mitsutake A, Okamoto Y.
    J Chem Phys; 2009 Jun 07; 130(21):214105. PubMed ID: 19508054
    [Abstract] [Full Text] [Related]

  • 5. Application of the multiensemble sampling to the equilibrium folding of proteins.
    Son HS, Kim SY, Lee J, Han KK.
    Bioinformatics; 2006 Aug 01; 22(15):1832-7. PubMed ID: 16766555
    [Abstract] [Full Text] [Related]

  • 6. Protein folding simulations by generalized-ensemble algorithms.
    Yoda T, Sugita Y, Okamoto Y.
    Adv Exp Med Biol; 2014 Aug 01; 805():1-27. PubMed ID: 24446355
    [Abstract] [Full Text] [Related]

  • 7. Simulated-tempering replica-exchange method for the multidimensional version.
    Mitsutake A.
    J Chem Phys; 2009 Sep 07; 131(9):094105. PubMed ID: 19739847
    [Abstract] [Full Text] [Related]

  • 8. Partial multicanonical algorithm for molecular dynamics and Monte Carlo simulations.
    Okumura H.
    J Chem Phys; 2008 Sep 28; 129(12):124116. PubMed ID: 19045015
    [Abstract] [Full Text] [Related]

  • 9. Structure and energy landscape of a photoswitchable peptide: a replica exchange molecular dynamics study.
    Nguyen PH, Mu Y, Stock G.
    Proteins; 2005 Aug 15; 60(3):485-94. PubMed ID: 15977160
    [Abstract] [Full Text] [Related]

  • 10. Monte Carlo method for computing density of states and quench probability of potential energy and enthalpy landscapes.
    Mauro JC, Loucks RJ, Balakrishnan J, Raghavan S.
    J Chem Phys; 2007 May 21; 126(19):194103. PubMed ID: 17523794
    [Abstract] [Full Text] [Related]

  • 11. Replica-exchange extensions of simulated tempering method.
    Mitsutake A, Okamoto Y.
    J Chem Phys; 2004 Aug 08; 121(6):2491-504. PubMed ID: 15281846
    [Abstract] [Full Text] [Related]

  • 12. New Monte Carlo algorithms for protein folding.
    Hansmann UH, Okamoto Y.
    Curr Opin Struct Biol; 1999 Apr 08; 9(2):177-83. PubMed ID: 10322208
    [Abstract] [Full Text] [Related]

  • 13. Ligand docking simulations by generalized-ensemble algorithms.
    Okamoto Y, Kokubo H, Tanaka T.
    Adv Protein Chem Struct Biol; 2013 Apr 08; 92():63-91. PubMed ID: 23954099
    [Abstract] [Full Text] [Related]

  • 14. 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]

  • 15. Convergence of replica exchange molecular dynamics.
    Zhang W, Wu C, Duan Y.
    J Chem Phys; 2005 Oct 15; 123(15):154105. PubMed ID: 16252940
    [Abstract] [Full Text] [Related]

  • 16. Preserving the Boltzmann ensemble in replica-exchange molecular dynamics.
    Cooke B, Schmidler SC.
    J Chem Phys; 2008 Oct 28; 129(16):164112. PubMed ID: 19045252
    [Abstract] [Full Text] [Related]

  • 17. Rapid boundary element solvation electrostatics calculations in folding simulations: successful folding of a 23-residue peptide.
    Totrov M, Abagyan R.
    Biopolymers; 2001 Oct 28; 60(2):124-33. PubMed ID: 11455546
    [Abstract] [Full Text] [Related]

  • 18. Temperature weighted histogram analysis method, replica exchange, and transition paths.
    Gallicchio E, Andrec M, Felts AK, Levy RM.
    J Phys Chem B; 2005 Apr 14; 109(14):6722-31. PubMed ID: 16851756
    [Abstract] [Full Text] [Related]

  • 19. An improved replica-exchange sampling method: temperature intervals with global energy reassignment.
    Li X, O'Brien CP, Collier G, Vellore NA, Wang F, Latour RA, Bruce DA, Stuart SJ.
    J Chem Phys; 2007 Oct 28; 127(16):164116. PubMed ID: 17979328
    [Abstract] [Full Text] [Related]

  • 20. Smart resolution replica exchange: an efficient algorithm for exploring complex energy landscapes.
    Liu P, Voth GA.
    J Chem Phys; 2007 Jan 28; 126(4):045106. PubMed ID: 17286516
    [Abstract] [Full Text] [Related]

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