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328 related items for PubMed ID: 25375531

  • 1. Wang-Landau sampling in face-centered-cubic hydrophobic-hydrophilic lattice model proteins.
    Liu J, Song B, Yao Y, Xue Y, Liu W, Liu Z.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2014 Oct; 90(4):042715. PubMed ID: 25375531
    [Abstract] [Full Text] [Related]

  • 2. Energy-landscape paving for prediction of face-centered-cubic hydrophobic-hydrophilic lattice model proteins.
    Liu J, Song B, Liu Z, Huang W, Sun Y, Liu W.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2013 Nov; 88(5):052704. PubMed ID: 24329293
    [Abstract] [Full Text] [Related]

  • 3. Protein-folding simulations of the hydrophobic-hydrophilic model by combining pull moves with energy landscape paving.
    Liu J, Li G, Yu J.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2011 Sep; 84(3 Pt 1):031934. PubMed ID: 22060430
    [Abstract] [Full Text] [Related]

  • 4. Heuristic energy landscape paving for protein folding problem in the three-dimensional HP lattice model.
    Liu J, Li G, Yu J, Yao Y.
    Comput Biol Chem; 2012 Jun; 38():17-26. PubMed ID: 22551826
    [Abstract] [Full Text] [Related]

  • 5. Optimized Wang-Landau sampling of lattice polymers: ground state search and folding thermodynamics of HP model proteins.
    Wüst T, Landau DP.
    J Chem Phys; 2012 Aug 14; 137(6):064903. PubMed ID: 22897307
    [Abstract] [Full Text] [Related]

  • 6. Improving the Wang-Landau algorithm for polymers and proteins.
    Swetnam AD, Allen MP.
    J Comput Chem; 2011 Apr 15; 32(5):816-21. PubMed ID: 20941735
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  • 9. Thermodynamics of hydrophobic-polar model proteins on the face-centered cubic lattice.
    Wilson MS, Landau DP.
    Phys Rev E; 2021 Aug 15; 104(2-2):025303. PubMed ID: 34525583
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  • 10. Structure optimization in a three-dimensional off-lattice protein model.
    Huang W, Liu J.
    Biopolymers; 2006 Jun 05; 82(2):93-8. PubMed ID: 16245261
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  • 11. Characterizing folding funnels with replica exchange Wang-Landau simulation of lattice proteins.
    Shi G, Wüst T, Landau DP.
    Phys Rev E; 2016 Nov 05; 94(5-1):050402. PubMed ID: 27967143
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  • 12. Finding multiple minimum-energy conformations of the hydrophobic-polar protein model via multidomain sampling.
    Tang W, Zhou Q.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2012 Sep 05; 86(3 Pt 1):031909. PubMed ID: 23030946
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  • 13. Effect of single-site mutations on hydrophobic-polar lattice proteins.
    Shi G, Vogel T, Wüst T, Li YW, Landau DP.
    Phys Rev E Stat Nonlin Soft Matter Phys; 2014 Sep 05; 90(3):033307. PubMed ID: 25314564
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  • 14. Extended HP model for protein structure prediction.
    Hoque T, Chetty M, Sattar A.
    J Comput Biol; 2009 Jan 05; 16(1):85-103. PubMed ID: 19119994
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  • 15. Constraint-based hydrophobic core construction for protein structure prediction in the face-centered-cubic lattice.
    Will S.
    Pac Symp Biocomput; 2002 Jan 05; ():661-72. PubMed ID: 11928518
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  • 16. Versatile approach to access the low temperature thermodynamics of lattice polymers and proteins.
    Wüst T, Landau DP.
    Phys Rev Lett; 2009 May 01; 102(17):178101. PubMed ID: 19518836
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  • 19. Protein Folding Prediction in a Cubic Lattice in Hydrophobic-Polar Model.
    Yanev N, Traykov M, Milanov P, Yurukov B.
    J Comput Biol; 2017 May 01; 24(5):412-421. PubMed ID: 27901606
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  • 20. Lattice neural network minimization. Application of neural network optimization for locating the global-minimum conformations of proteins.
    Rabow AA, Scheraga HA.
    J Mol Biol; 1993 Aug 20; 232(4):1157-68. PubMed ID: 8371272
    [Abstract] [Full Text] [Related]

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