115 related articles for article (PubMed ID: 27078395)
1. Nonlinear reconstruction of single-molecule free-energy surfaces from univariate time series.
Wang J; Ferguson AL
Phys Rev E; 2016 Mar; 93(3):032412. PubMed ID: 27078395
[TBL] [Abstract][Full Text] [Related]
2. Recovery of Protein Folding Funnels from Single-Molecule Time Series by Delay Embeddings and Manifold Learning.
Wang J; Ferguson AL
J Phys Chem B; 2018 Dec; 122(50):11931-11952. PubMed ID: 30428261
[TBL] [Abstract][Full Text] [Related]
3. Reconstruction of protein structures from single-molecule time series.
Topel M; Ferguson AL
J Chem Phys; 2020 Nov; 153(19):194102. PubMed ID: 33218248
[TBL] [Abstract][Full Text] [Related]
4. Learned Reconstruction of Protein Folding Trajectories from Noisy Single-Molecule Time Series.
Topel M; Ejaz A; Squires A; Ferguson AL
J Chem Theory Comput; 2023 Jul; 19(14):4654-4667. PubMed ID: 36701162
[TBL] [Abstract][Full Text] [Related]
5. Deep learning delay coordinate dynamics for chaotic attractors from partial observable data.
Young CD; Graham MD
Phys Rev E; 2023 Mar; 107(3-1):034215. PubMed ID: 37073016
[TBL] [Abstract][Full Text] [Related]
6. Separation of time scale and coupling in the motion governed by the coarse-grained and fine degrees of freedom in a polypeptide backbone.
Murarka RK; Liwo A; Scheraga HA
J Chem Phys; 2007 Oct; 127(15):155103. PubMed ID: 17949219
[TBL] [Abstract][Full Text] [Related]
7. Learning the dynamical system behind sensory data.
Lee J; Lee SY
Neural Comput; 2010 Jun; 22(6):1615-45. PubMed ID: 20100074
[TBL] [Abstract][Full Text] [Related]
8. Free energy surfaces from single-distance information.
Schuetz P; Wuttke R; Schuler B; Caflisch A
J Phys Chem B; 2010 Nov; 114(46):15227-35. PubMed ID: 20964427
[TBL] [Abstract][Full Text] [Related]
9. Intrinsic map dynamics exploration for uncharted effective free-energy landscapes.
Chiavazzo E; Covino R; Coifman RR; Gear CW; Georgiou AS; Hummer G; Kevrekidis IG
Proc Natl Acad Sci U S A; 2017 Jul; 114(28):E5494-E5503. PubMed ID: 28634293
[TBL] [Abstract][Full Text] [Related]
10. Dynamic force matching: A method for constructing dynamical coarse-grained models with realistic time dependence.
Davtyan A; Dama JF; Voth GA; Andersen HC
J Chem Phys; 2015 Apr; 142(15):154104. PubMed ID: 25903863
[TBL] [Abstract][Full Text] [Related]
11. Mapping potential energy surfaces.
Wu Y; Schmitt JD; Car R
J Chem Phys; 2004 Jul; 121(3):1193-200. PubMed ID: 15260660
[TBL] [Abstract][Full Text] [Related]
12. Smart resolution replica exchange: an efficient algorithm for exploring complex energy landscapes.
Liu P; Voth GA
J Chem Phys; 2007 Jan; 126(4):045106. PubMed ID: 17286516
[TBL] [Abstract][Full Text] [Related]
13. Machine learning of single molecule free energy surfaces and the impact of chemistry and environment upon structure and dynamics.
Mansbach RA; Ferguson AL
J Chem Phys; 2015 Mar; 142(10):105101. PubMed ID: 25770561
[TBL] [Abstract][Full Text] [Related]
14. Generalized theorems for nonlinear state space reconstruction.
Deyle ER; Sugihara G
PLoS One; 2011 Mar; 6(3):e18295. PubMed ID: 21483839
[TBL] [Abstract][Full Text] [Related]
15. Congruent qualitative behavior of complete and reconstructed phase space trajectories from biomolecular dynamics simulation.
Caves LS; Verma CS
Proteins; 2002 Apr; 47(1):25-30. PubMed ID: 11870862
[TBL] [Abstract][Full Text] [Related]
16. Stabilizing embedology: Geometry-preserving delay-coordinate maps.
Eftekhari A; Yap HL; Wakin MB; Rozell CJ
Phys Rev E; 2018 Feb; 97(2-1):022222. PubMed ID: 29548121
[TBL] [Abstract][Full Text] [Related]
17. Efficient and direct generation of multidimensional free energy surfaces via adiabatic dynamics without coordinate transformations.
Abrams JB; Tuckerman ME
J Phys Chem B; 2008 Dec; 112(49):15742-57. PubMed ID: 19367870
[TBL] [Abstract][Full Text] [Related]
18. Conservative and dissipative force field for simulation of coarse-grained alkane molecules: a bottom-up approach.
Trément S; Schnell B; Petitjean L; Couty M; Rousseau B
J Chem Phys; 2014 Apr; 140(13):134113. PubMed ID: 24712786
[TBL] [Abstract][Full Text] [Related]
19. Time series analyses of breathing patterns of lung cancer patients using nonlinear dynamical system theory.
Tewatia DK; Tolakanahalli RP; Paliwal BR; Tomé WA
Phys Med Biol; 2011 Apr; 56(7):2161-81. PubMed ID: 21389355
[TBL] [Abstract][Full Text] [Related]
20. Structural dynamics of supercooled water from quasielastic neutron scattering and molecular simulations.
Qvist J; Schober H; Halle B
J Chem Phys; 2011 Apr; 134(14):144508. PubMed ID: 21495765
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]