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 *

191 related articles for article (PubMed ID: 26528090)

  • 1. Modeling molecular kinetics with tICA and the kernel trick.
    Schwantes CR; Pande VS
    J Chem Theory Comput; 2015 Feb; 11(2):600-8. PubMed ID: 26528090
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Kinetic distance and kinetic maps from molecular dynamics simulation.
    Noé F; Clementi C
    J Chem Theory Comput; 2015 Oct; 11(10):5002-11. PubMed ID: 26574285
    [TBL] [Abstract][Full Text] [Related]  

  • 3. A kernel-based approach to molecular conformation analysis.
    Klus S; Bittracher A; Schuster I; Schütte C
    J Chem Phys; 2018 Dec; 149(24):244109. PubMed ID: 30599717
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Markov State Models to Elucidate Ligand Binding Mechanism.
    Ge Y; Voelz VA
    Methods Mol Biol; 2021; 2266():239-259. PubMed ID: 33759131
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Variational Koopman models: Slow collective variables and molecular kinetics from short off-equilibrium simulations.
    Wu H; Nüske F; Paul F; Klus S; Koltai P; Noé F
    J Chem Phys; 2017 Apr; 146(15):154104. PubMed ID: 28433026
    [TBL] [Abstract][Full Text] [Related]  

  • 6. 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]  

  • 7. Identifying the leading dynamics of ubiquitin: A comparison between the tICA and the LE4PD slow fluctuations in amino acids' position.
    Beyerle ER; Guenza MG
    J Chem Phys; 2021 Dec; 155(24):244108. PubMed ID: 34972386
    [TBL] [Abstract][Full Text] [Related]  

  • 8. 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]  

  • 9. 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]  

  • 10. How kinetics within the unfolded state affects protein folding: an analysis based on markov state models and an ultra-long MD trajectory.
    Deng NJ; Dai W; Levy RM
    J Phys Chem B; 2013 Oct; 117(42):12787-99. PubMed ID: 23705683
    [TBL] [Abstract][Full Text] [Related]  

  • 11. 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]  

  • 12. Slow dynamics in protein fluctuations revealed by time-structure based independent component analysis: the case of domain motions.
    Naritomi Y; Fuchigami S
    J Chem Phys; 2011 Feb; 134(6):065101. PubMed ID: 21322734
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Uncertainty in a Markov state model with missing states and rates: Application to a room temperature kinetic model obtained using high temperature molecular dynamics.
    Chatterjee A; Bhattacharya S
    J Chem Phys; 2015 Sep; 143(11):114109. PubMed ID: 26395689
    [TBL] [Abstract][Full Text] [Related]  

  • 14. 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]  

  • 15. 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]  

  • 16. Girsanov reweighting for metadynamics simulations.
    Donati L; Keller BG
    J Chem Phys; 2018 Aug; 149(7):072335. PubMed ID: 30134671
    [TBL] [Abstract][Full Text] [Related]  

  • 17. tICA-Metadynamics: Accelerating Metadynamics by Using Kinetically Selected Collective Variables.
    M Sultan M; Pande VS
    J Chem Theory Comput; 2017 Jun; 13(6):2440-2447. PubMed ID: 28383914
    [TBL] [Abstract][Full Text] [Related]  

  • 18. What Markov State Models Can and Cannot Do: Correlation versus Path-Based Observables in Protein-Folding Models.
    Suárez E; Wiewiora RP; Wehmeyer C; Noé F; Chodera JD; Zuckerman DM
    J Chem Theory Comput; 2021 May; 17(5):3119-3133. PubMed ID: 33904312
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Transferable Neural Networks for Enhanced Sampling of Protein Dynamics.
    Sultan MM; Wayment-Steele HK; Pande VS
    J Chem Theory Comput; 2018 Apr; 14(4):1887-1894. PubMed ID: 29529369
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Simulating the peptide folding kinetic related spectra based on the Markov State Model.
    Song J; Zhuang W
    Adv Exp Med Biol; 2014; 805():199-220. PubMed ID: 24446363
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 10.