APOGEE: Global optimization of standard, generalized, and extended pooling problems via linear and logarithmic partitioning schemes R Misener, JP Thompson, CA Floudas Computers & Chemical Engineering 35 (5), 876-892, 2011 | 171 | 2011 |
Forcefield_PTM: Ab Initio Charge and AMBER Forcefield Parameters for Frequently Occurring Post-Translational Modifications GA Khoury, JP Thompson, J Smadbeck, CA Kieslich, CA Floudas Journal of chemical theory and computation 9 (12), 5653-5674, 2013 | 126 | 2013 |
WESTPA 2.0: High-performance upgrades for weighted ensemble simulations and analysis of longer-timescale applications JD Russo, S Zhang, JMG Leung, AT Bogetti, JP Thompson, AJ DeGrave, ... Journal of Chemical Theory and Computation 18 (2), 638-649, 2022 | 58 | 2022 |
CONCORD: a consensus method for protein secondary structure prediction via mixed integer linear optimization Y Wei, J Thompson, CA Floudas Proceedings of the Royal Society A: Mathematical, Physical and Engineering …, 2012 | 49 | 2012 |
Mechanistic Insights into Passive Membrane Permeability of Drug-like Molecules from a Weighted Ensemble of Trajectories S Zhang, JP Thompson, J Xia, AT Bogetti, F York, AG Skillman, LT Chong, ... Journal of Chemical Information and Modeling 62 (8), 1891-1904, 2022 | 22 | 2022 |
2011 L Wei, J Thompson, CA Floudas Stage bi de Pro incie Zuid-Holland.,(3), 20-21, 2011 | 12 | 2011 |
A Suite of Tutorials for the WESTPA 2.0 Rare-Events Sampling Software [Article v2. 0] AT Bogetti, JMG Leung, JD Russo, S Zhang, JP Thompson, AS Saglam, ... Living journal of computational molecular science 5 (1), 2023 | 8 | 2023 |
A Suite of Advanced Tutorials for the WESTPA 2.0 Rare-Events Sampling Software [Article v0. 1] AT Bogetti, JMG Leung, JD Russo, S Zhang, JP Thompson, AS Saglam, ... bioRxiv, 2022.10. 04.510803, 2022 | 8 | 2022 |
System-size effects in ionic fluids under periodic boundary conditions JP Thompson, IC Sanchez The Journal of Chemical Physics 145 (21), 2016 | 8 | 2016 |
Codon selection affects recruitment of ribosome-associating factors during translation AM Rojano-Nisimura, K Haning, J Janovsky, KA Vasquez, JP Thompson, ... ACS Synthetic Biology 9 (2), 329-342, 2019 | 6 | 2019 |
A Lower Bound on the Partition Function for a Strictly Neutral Charge-Symmetric System JP Thompson, IC Sanchez Journal of Statistical Physics 177 (6), 1207-1215, 2019 | | 2019 |
Putative role of attractive and repulsive forces in the glass transition IC Sanchez, SP O'Keefe, JP Thompson Polymer 135, 230-240, 2018 | | 2018 |
Effects of periodic boundary conditions on the static properties of charged fluids JP Thompson The University of Texas at Austin, 2017 | | 2017 |
Finite-size effects in simulations of electrolyte solutions under periodic boundary conditions J Thompson, I Sanchez APS March Meeting Abstracts 2017, M1. 336, 2017 | | 2017 |
Publisher’s Note:“System-size effects in ionic fluids under periodic boundary conditions”[J. Chem. Phys. 145, 214103 JP Thompson, IC Sanchez The Journal of Chemical Physics 146, 039901, 2017 | | 2017 |
Forcefield Ptm: Development and Testing of a First Generation AMBER Forcefield for Post-Translational Modifications GA Khoury, JP Thompson, CA Floudas AIChE Annual Meeting Abstracts, 2012 | | 2012 |
EOS: A Mixed-Integer Linear Optimization Model for Single-Sequence Beta-Strand Prediction JP Thompson | | 2010 |