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 *

164 related articles for article (PubMed ID: 36920924)

  • 1. Building insightful, memory-enriched models to capture long-time biochemical processes from short-time simulations.
    Dominic AJ; Sayer T; Cao S; Markland TE; Huang X; Montoya-Castillo A
    Proc Natl Acad Sci U S A; 2023 Mar; 120(12):e2221048120. PubMed ID: 36920924
    [TBL] [Abstract][Full Text] [Related]  

  • 2. On the advantages of exploiting memory in Markov state models for biomolecular dynamics.
    Cao S; Montoya-Castillo A; Wang W; Markland TE; Huang X
    J Chem Phys; 2020 Jul; 153(1):014105. PubMed ID: 32640825
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Markov state models from hierarchical density-based assignment.
    Mitxelena I; López X; de Sancho D
    J Chem Phys; 2021 Aug; 155(5):054102. PubMed ID: 34364321
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Application of Markov State Models to simulate long timescale dynamics of biological macromolecules.
    Da LT; Sheong FK; Silva DA; Huang X
    Adv Exp Med Biol; 2014; 805():29-66. PubMed ID: 24446356
    [TBL] [Abstract][Full Text] [Related]  

  • 5. MasterMSM: A Package for Constructing Master Equation Models of Molecular Dynamics.
    de Sancho D; Aguirre A
    J Chem Inf Model; 2019 Sep; 59(9):3625-3629. PubMed ID: 31423789
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Markov state models provide insights into dynamic modulation of protein function.
    Shukla D; Hernández CX; Weber JK; Pande VS
    Acc Chem Res; 2015 Feb; 48(2):414-22. PubMed ID: 25625937
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).
    Foffi G; Pastore A; Piazza F; Temussi PA
    Phys Biol; 2013 Aug; 10(4):040301. PubMed ID: 23912807
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Long-time methods for molecular dynamics simulations: Markov State Models and Milestoning.
    Narayan B; Yuan Y; Fathizadeh A; Elber R; Buchete NV
    Prog Mol Biol Transl Sci; 2020; 170():215-237. PubMed ID: 32145946
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Conformational analysis of replica exchange MD: Temperature-dependent Markov networks for FF amyloid peptides.
    Narayan B; Herbert C; Yuan Y; Rodriguez BJ; Brooks BR; Buchete NV
    J Chem Phys; 2018 Aug; 149(7):072323. PubMed ID: 30134732
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Building Markov State Models for Periodically Driven Non-Equilibrium Systems.
    Wang H; Schütte C
    J Chem Theory Comput; 2015 Apr; 11(4):1819-31. PubMed ID: 26889513
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Dynamic neutron scattering from conformational dynamics. II. Application using molecular dynamics simulation and Markov modeling.
    Yi Z; Lindner B; Prinz JH; Noé F; Smith JC
    J Chem Phys; 2013 Nov; 139(17):175102. PubMed ID: 24206335
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Constructing multi-resolution Markov State Models (MSMs) to elucidate RNA hairpin folding mechanisms.
    Huang X; Yao Y; Bowman GR; Sun J; Guibas LJ; Carlsson G; Pande VS
    Pac Symp Biocomput; 2010; ():228-39. PubMed ID: 19908375
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Markov state model reveals folding and functional dynamics in ultra-long MD trajectories.
    Lane TJ; Bowman GR; Beauchamp K; Voelz VA; Pande VS
    J Am Chem Soc; 2011 Nov; 133(45):18413-9. PubMed ID: 21988563
    [TBL] [Abstract][Full Text] [Related]  

  • 14. A comparison of weighted ensemble and Markov state model methodologies.
    Feng H; Costaouec R; Darve E; Izaguirre JA
    J Chem Phys; 2015 Jun; 142(21):214113. PubMed ID: 26049485
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Hierarchical Nyström methods for constructing Markov state models for conformational dynamics.
    Yao Y; Cui RZ; Bowman GR; Silva DA; Sun J; Huang X
    J Chem Phys; 2013 May; 138(17):174106. PubMed ID: 23656113
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Statistical model selection for Markov models of biomolecular dynamics.
    McGibbon RT; Schwantes CR; Pande VS
    J Phys Chem B; 2014 Jun; 118(24):6475-81. PubMed ID: 24738580
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Memory Unlocks the Future of Biomolecular Dynamics: Transformative Tools to Uncover Physical Insights Accurately and Efficiently.
    Dominic AJ; Cao S; Montoya-Castillo A; Huang X
    J Am Chem Soc; 2023 May; 145(18):9916-9927. PubMed ID: 37104720
    [TBL] [Abstract][Full Text] [Related]  

  • 18. NMR relaxation in proteins with fast internal motions and slow conformational exchange: model-free framework and Markov state simulations.
    Xia J; Deng NJ; Levy RM
    J Phys Chem B; 2013 Jun; 117(22):6625-34. PubMed ID: 23638941
    [TBL] [Abstract][Full Text] [Related]  

  • 19. A Bayesian method for construction of Markov models to describe dynamics on various time-scales.
    Rains EK; Andersen HC
    J Chem Phys; 2010 Oct; 133(14):144113. PubMed ID: 20949993
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Persistent topology and metastable state in conformational dynamics.
    Chang HW; Bacallado S; Pande VS; Carlsson GE
    PLoS One; 2013; 8(4):e58699. PubMed ID: 23565139
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.