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 *

180 related articles for article (PubMed ID: 31521094)

  • 1. Approximating dynamic proximity with a hybrid geometry energy-based kernel for diffusion maps.
    Tan Q; Duan M; Li M; Han L; Huo S
    J Chem Phys; 2019 Sep; 151(10):105101. PubMed ID: 31521094
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Euclidean sections of protein conformation space and their implications in dimensionality reduction.
    Duan M; Li M; Han L; Huo S
    Proteins; 2014 Oct; 82(10):2585-96. PubMed ID: 24913095
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Systematic characterization of protein folding pathways using diffusion maps: application to Trp-cage miniprotein.
    Kim SB; Dsilva CJ; Kevrekidis IG; Debenedetti PG
    J Chem Phys; 2015 Feb; 142(8):085101. PubMed ID: 25725756
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Investigating Molecular Kinetics by Variationally Optimized Diffusion Maps.
    Boninsegna L; Gobbo G; Noé F; Clementi C
    J Chem Theory Comput; 2015 Dec; 11(12):5947-60. PubMed ID: 26580713
    [TBL] [Abstract][Full Text] [Related]  

  • 5. 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]  

  • 6. Diffusion maps, clustering and fuzzy Markov modeling in peptide folding transitions.
    Nedialkova LV; Amat MA; Kevrekidis IG; Hummer G
    J Chem Phys; 2014 Sep; 141(11):114102. PubMed ID: 25240340
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Folding free energy landscapes of
    Hazel AJ; Walters ET; Rowley CN; Gumbart JC
    J Chem Phys; 2018 Aug; 149(7):072317. PubMed ID: 30134731
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Using Dimensionality Reduction to Systematically Expand Conformational Sampling of Intrinsically Disordered Peptides.
    Kukharenko O; Sawade K; Steuer J; Peter C
    J Chem Theory Comput; 2016 Oct; 12(10):4726-4734. PubMed ID: 27588692
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Equilibrium thermodynamics and folding kinetics of a short, fast-folding, beta-hairpin.
    Jimenez-Cruz CA; Garcia AE
    Phys Chem Chem Phys; 2014 Apr; 16(14):6422-9. PubMed ID: 24472872
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Evaluation of configurational entropy methods from peptide folding-unfolding simulation.
    Li DW; Khanlarzadeh M; Wang J; Huo S; Brüschweiler R
    J Phys Chem B; 2007 Dec; 111(49):13807-13. PubMed ID: 18020439
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Hybrid Cascade-Type Molecular Dynamics with a Markov State Model for Efficient Free Energy Calculations.
    Harada R; Shigeta Y
    J Chem Theory Comput; 2019 Jan; 15(1):680-687. PubMed ID: 30468705
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Variational embedding of protein folding simulations using Gaussian mixture variational autoencoders.
    Ghorbani M; Prasad S; Klauda JB; Brooks BR
    J Chem Phys; 2021 Nov; 155(19):194108. PubMed ID: 34800961
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Application of nonlinear dimensionality reduction to characterize the conformational landscape of small peptides.
    Stamati H; Clementi C; Kavraki LE
    Proteins; 2010 Feb; 78(2):223-35. PubMed ID: 19731366
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Evaluation of Dimensionality-reduction Methods from Peptide Folding-unfolding Simulations.
    Duan M; Fan J; Li M; Han L; Huo S
    J Chem Theory Comput; 2013 May; 9(5):2490-2497. PubMed ID: 23772182
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Experimental conformational energy maps of proteins and peptides.
    Balaji GA; Nagendra HG; Balaji VN; Rao SN
    Proteins; 2017 Jun; 85(6):979-1001. PubMed ID: 28168743
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Long dynamics simulations of proteins using atomistic force fields and a continuum representation of solvent effects: calculation of structural and dynamic properties.
    Li X; Hassan SA; Mehler EL
    Proteins; 2005 Aug; 60(3):464-84. PubMed ID: 15959866
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Gaussian Markov transition models of molecular kinetics.
    Wu H; Noé F
    J Chem Phys; 2015 Feb; 142(8):084104. PubMed ID: 25725709
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Energy landscape and dynamics of the beta-hairpin G peptide and its isomers: Topology and sequences.
    Ma B; Nussinov R
    Protein Sci; 2003 Sep; 12(9):1882-93. PubMed ID: 12930988
    [TBL] [Abstract][Full Text] [Related]  

  • 19. An Effective Approach for Clustering InhA Molecular Dynamics Trajectory Using Substrate-Binding Cavity Features.
    De Paris R; Quevedo CV; Ruiz DD; Norberto de Souza O
    PLoS One; 2015; 10(7):e0133172. PubMed ID: 26218832
    [TBL] [Abstract][Full Text] [Related]  

  • 20. A comparative study of two different force fields on structural and thermodynamics character of H1 peptide via molecular dynamics simulations.
    Cao Z; Wang J
    J Biomol Struct Dyn; 2010 Apr; 27(5):651-61. PubMed ID: 20085382
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.