These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

140 related articles for article (PubMed ID: 25716583)

  • 1. Fep1d: a script for the analysis of reaction coordinates.
    Banushkina PV; Krivov SV
    J Comput Chem; 2015 May; 36(12):878-82. PubMed ID: 25716583
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Is protein folding sub-diffusive?
    Krivov SV
    PLoS Comput Biol; 2010 Sep; 6(9):. PubMed ID: 20862361
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Coordinate and time-dependent diffusion dynamics in protein folding.
    Oliveira RJ; Whitford PC; Chahine J; Leite VB; Wang J
    Methods; 2010 Sep; 52(1):91-8. PubMed ID: 20438841
    [TBL] [Abstract][Full Text] [Related]  

  • 4. High-resolution free energy landscape analysis of protein folding.
    Banushkina PV; Krivov SV
    Biochem Soc Trans; 2015 Apr; 43(2):157-61. PubMed ID: 25849910
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Transition-Path Probability as a Test of Reaction-Coordinate Quality Reveals DNA Hairpin Folding Is a One-Dimensional Diffusive Process.
    Neupane K; Manuel AP; Lambert J; Woodside MT
    J Phys Chem Lett; 2015 Mar; 6(6):1005-10. PubMed ID: 26262860
    [TBL] [Abstract][Full Text] [Related]  

  • 6. The free energy landscape analysis of protein (FIP35) folding dynamics.
    Krivov SV
    J Phys Chem B; 2011 Oct; 115(42):12315-24. PubMed ID: 21902225
    [TBL] [Abstract][Full Text] [Related]  

  • 7. The reweighted path ensemble.
    Rogal J; Lechner W; Juraszek J; Ensing B; Bolhuis PG
    J Chem Phys; 2010 Nov; 133(17):174109. PubMed ID: 21054008
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Delineation of folding pathways of a β-sheet miniprotein.
    Zheng W; Qi B; Rohrdanz MA; Caflisch A; Dinner AR; Clementi C
    J Phys Chem B; 2011 Nov; 115(44):13065-74. PubMed ID: 21942785
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Microscopically computing free-energy profiles and transition path time of rare macromolecular transitions.
    Faccioli P; Pederiva F
    Phys Rev E Stat Nonlin Soft Matter Phys; 2012 Dec; 86(6 Pt 1):061916. PubMed ID: 23367984
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Free-energy calculations along a high-dimensional fragmented path with constrained dynamics.
    Chen C; Huang Y; Xiao Y
    Phys Rev E Stat Nonlin Soft Matter Phys; 2012 Sep; 86(3 Pt 1):031901. PubMed ID: 23030938
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Protein Folding Free Energy Landscape along the Committor - the Optimal Folding Coordinate.
    Krivov SV
    J Chem Theory Comput; 2018 Jul; 14(7):3418-3427. PubMed ID: 29791148
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Effective stochastic dynamics on a protein folding energy landscape.
    Yang S; Onuchic JN; Levine H
    J Chem Phys; 2006 Aug; 125(5):054910. PubMed ID: 16942260
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Numerical construction of the p(fold) (committor) reaction coordinate for a Markov process.
    Krivov SV
    J Phys Chem B; 2011 Oct; 115(39):11382-8. PubMed ID: 21861509
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Diffusive reaction dynamics on invariant free energy profiles.
    Krivov SV; Karplus M
    Proc Natl Acad Sci U S A; 2008 Sep; 105(37):13841-6. PubMed ID: 18772379
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Polymer reversal rate calculated via locally scaled diffusion map.
    Zheng W; Rohrdanz MA; Maggioni M; Clementi C
    J Chem Phys; 2011 Apr; 134(14):144109. PubMed ID: 21495744
    [TBL] [Abstract][Full Text] [Related]  

  • 16. The energy gap as a universal reaction coordinate for the simulation of chemical reactions.
    Mones L; Kulhánek P; Simon I; Laio A; Fuxreiter M
    J Phys Chem B; 2009 Jun; 113(22):7867-73. PubMed ID: 19432459
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Tracing the minimum-energy path on the free-energy surface.
    Fleurat-Lessard P; Ziegler T
    J Chem Phys; 2005 Aug; 123(8):084101. PubMed ID: 16164276
    [TBL] [Abstract][Full Text] [Related]  

  • 18. On Reaction Coordinate Optimality.
    Krivov SV
    J Chem Theory Comput; 2013 Jan; 9(1):135-46. PubMed ID: 26589017
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Topologically invariant reaction coordinates for simulating multistate chemical reactions.
    Mones L; Csányi G
    J Phys Chem B; 2012 Dec; 116(51):14876-85. PubMed ID: 23214508
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Broad distributions of transition-path times are fingerprints of multidimensionality of the underlying free energy landscapes.
    Satija R; Berezhkovskii AM; Makarov DE
    Proc Natl Acad Sci U S A; 2020 Nov; 117(44):27116-27123. PubMed ID: 33087575
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 7.