Jason Wagoner
Title
Cited by
Cited by
Year
Assessing implicit models for nonpolar mean solvation forces: the importance of dispersion and volume terms
JA Wagoner, NA Baker
Proceedings of the National Academy of Sciences 103 (22), 8331-8336, 2006
2972006
Solvation forces on biomolecular structures: a comparison of explicit solvent and Poisson–Boltzmann models
J Wagoner, NA Baker
Journal of computational chemistry 25 (13), 1623-1629, 2004
1212004
Perspective: Maximum caliber is a general variational principle for dynamical systems
PD Dixit, J Wagoner, C Weistuch, S Pressť, K Ghosh, KA Dill
The Journal of chemical physics 148 (1), 010901, 2018
532018
Optimizing the Poisson dielectric boundary with explicit solvent forces and energies: lessons learned with atom-centered dielectric functions
JMJ Swanson, JA Wagoner, NA Baker, JA McCammon
Journal of Chemical Theory and Computation 3 (1), 170-183, 2007
512007
Molecular motors: Power strokes outperform Brownian ratchets
JA Wagoner, KA Dill
The Journal of Physical Chemistry B 120 (26), 6327-6336, 2016
472016
The SARS-CoV-2 nucleocapsid protein is dynamic, disordered, and phase separates with RNA
J Cubuk, JJ Alston, JJ Incicco, S Singh, MD Stuchell-Brereton, MD Ward, ...
Nature communications 12 (1), 1-17, 2021
412021
Assessing the performance of implicit solvation models at a nucleic acid surface
F Dong, JA Wagoner, NA Baker
Physical Chemistry Chemical Physics 10 (32), 4889-4902, 2008
232008
A smoothly decoupled particle interface: new methods for coupling explicit and implicit solvent
JA Wagoner, VS Pande
The Journal of chemical physics 134 (21), 214103, 2011
202011
Reducing the effect of Metropolization on mixing times in molecular dynamics simulations
JA Wagoner, VS Pande
The Journal of chemical physics 137 (21), 214105, 2012
182012
Mechanisms for achieving high speed and efficiency in biomolecular machines
JA Wagoner, KA Dill
Proceedings of the National Academy of Sciences 116 (13), 5902-5907, 2019
152019
Finite domain simulations with adaptive boundaries: Accurate potentials and nonequilibrium movesets
JA Wagoner, VS Pande
The Journal of chemical physics 139 (23), 12B616_1, 2013
152013
Communication: adaptive boundaries in multiscale simulations
JA Wagoner, VS Pande
The Journal of chemical physics 148 (14), 141104, 2018
82018
Opposing pressures of speed and efficiency guide the evolution of molecular machines
JA Wagoner, KA Dill
Molecular biology and evolution 36 (12), 2813-2822, 2019
52019
A Catch Bond Suppresses Fluctuations in the Coordinated Actions of Myosin II Motors
JA Wagoner
Biophysical Journal 118 (3), 119a, 2020
2020
Evolutionary Tradeoffs in Efficiency and Turnover Rate for F0F1-ATPase
JA Wagoner, K Dill
Biophysical Journal 114 (3), 519a, 2018
2018
Molecular Motors have Evolved to Optimize Thermodynamic Performance
JA Wagoner, K Dill
Biophysical Journal 112 (3), 279a, 2017
2017
Combining Physics and Knowledge in Blind Protein Structure Prediction
E Brini, J Morrone, J Wagoner, J MacCallum, K Dill
Biophysical Journal 110 (3), 345a, 2016
2016
The Nonequilibrium Statistical Thermodynamics of Biological Cycles
JA Wagoner, K Dill
Biophysical Journal 110 (3), 349a-350a, 2016
2016
Adaptive Boundaries in Multi-Resolution Simulations
JA Wagoner, K Dill, V Pande
Biophysical Journal 108 (2), 182a, 2015
2015
Finite Representation of an Infinite Molecular System: Algorithms and Applications
JA Wagoner
Stanford University, 2012
2012
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Articles 1–20