| Well-tempered metadynamics converges asymptotically JF Dama, M Parrinello, GA Voth Physical review letters 112 (24), 240602, 2014 | 303 | 2014 |
| The theory of ultra-coarse-graining. 1. General principles JF Dama, AV Sinitskiy, M McCullagh, J Weare, B Roux, AR Dinner, ... Journal of chemical theory and computation 9 (5), 2466-2480, 2013 | 185 | 2013 |
| Coarse-grained simulation reveals key features of HIV-1 capsid self-assembly JMA Grime, JF Dama, BK Ganser-Pornillos, CL Woodward, GJ Jensen, ... Nature communications 7 (1), 11568, 2016 | 145 | 2016 |
| On the representability problem and the physical meaning of coarse-grained models JW Wagner, JF Dama, AEP Durumeric, GA Voth The Journal of chemical physics 145 (4), 2016 | 129 | 2016 |
| Dynamic force matching: A method for constructing dynamical coarse-grained models with realistic time dependence A Davtyan, JF Dama, GA Voth, HC Andersen The Journal of Chemical Physics 142 (15), 2015 | 108 | 2015 |
| Fitting coarse-grained distribution functions through an iterative force-matching method L Lu, JF Dama, GA Voth The Journal of chemical physics 139 (12), 2013 | 96 | 2013 |
| Transition-tempered metadynamics: Robust, convergent metadynamics via on-the-fly transition barrier estimation JF Dama, G Rotskoff, M Parrinello, GA Voth Journal of Chemical Theory and Computation 10 (9), 3626-3633, 2014 | 82 | 2014 |
| The theory of ultra-coarse-graining. 2. Numerical implementation A Davtyan, JF Dama, AV Sinitskiy, GA Voth Journal of chemical theory and computation 10 (12), 5265-5275, 2014 | 62 | 2014 |
| The theory of ultra-coarse-graining. 3. Coarse-grained sites with rapid local equilibrium of internal states JF Dama, J Jin, GA Voth Journal of chemical theory and computation 13 (3), 1010-1022, 2017 | 59 | 2017 |
| Designing free energy surfaces that match experimental data with metadynamics AD White, JF Dama, GA Voth Journal of Chemical Theory and Computation 11 (6), 2451-2460, 2015 | 56 | 2015 |
| Transition-tempered metadynamics is a promising tool for studying the permeation of drug-like molecules through membranes R Sun, JF Dama, JS Tan, JP Rose, GA Voth Journal of chemical theory and computation 12 (10), 5157-5169, 2016 | 54 | 2016 |
| Exploring valleys without climbing every peak: more efficient and forgiving metabasin metadynamics via robust on-the-fly bias domain restriction JF Dama, GM Hocky, R Sun, GA Voth Journal of chemical theory and computation 11 (12), 5638-5650, 2015 | 41 | 2015 |
| Simulating protein mediated hydrolysis of ATP and other nucleoside triphosphates by combining QM/MM molecular dynamics with advances in metadynamics R Sun, O Sode, JF Dama, GA Voth Journal of chemical theory and computation 13 (5), 2332-2341, 2017 | 39 | 2017 |
| Mesoscopic coarse-grained representations of fluids rigorously derived from atomistic models Y Han, JF Dama, GA Voth The Journal of Chemical Physics 149 (4), 2018 | 33 | 2018 |
| Solvent free ionic solution models from multiscale coarse-graining Z Cao, JF Dama, L Lu, GA Voth Journal of Chemical Theory and Computation 9 (1), 172-178, 2013 | 30 | 2013 |
| Minimizing memory as an objective for coarse-graining N Guttenberg, JF Dama, MG Saunders, GA Voth, J Weare, AR Dinner The Journal of chemical physics 138 (9), 2013 | 25 | 2013 |
| A perturbative solution to metadynamics ordinary differential equation P Tiwary, JF Dama, M Parrinello The Journal of Chemical Physics 143 (23), 2015 | 19 | 2015 |
| Predicting the sensitivity of multiscale coarse-grained models to their underlying fine-grained model parameters JW Wagner, JF Dama, GA Voth Journal of Chemical Theory and Computation 11 (8), 3547-3560, 2015 | 16 | 2015 |
| An asymptotic analysis of differential electrical mobility classifiers AJ Downard, JF Dama, RC Flagan Aerosol Science and Technology 45 (6), 727-739, 2011 | 16 | 2011 |
| Correction to the theory of ultra-coarse-graining. 3. Coarse-grained sites with rapid local equilibrium of internal states JF Dama, J Jin, GA Voth Journal of Chemical Theory and Computation 14 (4), 2288-2288, 2018 | 7 | 2018 |
