| The Amber biomolecular simulation programs DA Case, TE Cheatham, T Darden, H Gohlke, R Luo, KM Merz, A Onufriev, ... Journal of computational chemistry 26 (16), 1668-1688, 2005 | 10560 | 2005 |
| Amber 2023 DA Case, HM Aktulga, K Belfon, IY Ben-Shalom, JT Berryman, SR Brozell, ... University of California, San Francisco, 2023 | 6073 | 2023 |
| Exploring protein native states and large‐scale conformational changes with a modified generalized born model A Onufriev, D Bashford, DA Case Proteins: Structure, Function, and Bioinformatics 55 (2), 383-394, 2004 | 2738 | 2004 |
| H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations R Anandakrishnan, B Aguilar, AV Onufriev Nucleic Acids Research 40 (W1), W537-W541, 2012 | 1748 | 2012 |
| H++: a server for estimating p Ka s and adding missing hydrogens to macromolecules JC Gordon, JB Myers, T Folta, V Shoja, LS Heath, A Onufriev Nucleic acids research 33 (suppl_2), W368-W371, 2005 | 1724 | 2005 |
| Modification of the generalized Born model suitable for macromolecules A Onufriev, D Bashford, A David The Journal of Physical Chemistry B 104 (15), 3712-3720, 2000 | 1249 | 2000 |
| Building water models: a different approach S Izadi, R Anandakrishnan, AV Onufriev The journal of physical chemistry letters 5 (21), 3863-3871, 2014 | 1062 | 2014 |
| Performance comparison of generalized Born and Poisson methods in the calculation of electrostatic solvation energies for protein structures M Feig, A Onufriev, MS Lee, W Im, DA Case, CL Brooks Journal of computational chemistry 25 (2), 265-284, 2003 | 751 | 2003 |
| AmberTools DA Case, HM Aktulga, K Belfon, DS Cerutti, GA Cisneros, VWD Cruzeiro, ... Journal of chemical information and modeling 63 (20), 6183-6191, 2023 | 669 | 2023 |
| Effective Born radii in the generalized Born approximation: the importance of being perfect A Onufriev, DA Case, D Bashford Journal of computational chemistry 23 (14), 1297-1304, 2002 | 580 | 2002 |
| Generalized Born model with a simple, robust molecular volume correction J Mongan, C Simmerling, JA McCammon, DA Case, A Onufriev Journal of chemical theory and computation 3 (1), 156-169, 2007 | 473 | 2007 |
| A simple clustering algorithm can be accurate enough for use in calculations of pKs in macromolecules J Myers, G Grothaus, S Narayanan, A Onufriev Proteins: Structure, Function, and Bioinformatics 63 (4), 928-938, 2006 | 377 | 2006 |
| AMBER 20 DA Case, K Belfon, IY Ben-Shalom, SR Brozell, DS Cerutti, ... University of California: San Francisco, CA, USA, 2020 | 374 | 2020 |
| Accuracy limit of rigid 3-point water models S Izadi, AV Onufriev The Journal of chemical physics 145 (7), 2016 | 314 | 2016 |
| Generalized born implicit solvent models for biomolecules AV Onufriev, DA Case Annual review of biophysics 48 (1), 275-296, 2019 | 258 | 2019 |
| A novel view of pH titration in biomolecules A Onufriev, A David, GM Ullmann Biochemistry 40 (12), 3413-3419, 2001 | 246 | 2001 |
| Speed of conformational change: comparing explicit and implicit solvent molecular dynamics simulations R Anandakrishnan, A Drozdetski, RC Walker, AV Onufriev Biophysical journal 108 (5), 1153-1164, 2015 | 224 | 2015 |
| Water models for biomolecular simulations AV Onufriev, S Izadi Wiley Interdisciplinary Reviews: Computational Molecular Science 8 (2), e1347, 2018 | 210 | 2018 |
| Protonation and pK changes in protein–ligand binding AV Onufriev, E Alexov Quarterly reviews of biophysics 46 (2), 181-209, 2013 | 198 | 2013 |
| Analytical electrostatics for biomolecules: Beyond the generalized Born approximation G Sigalov, A Fenley, A Onufriev The Journal of chemical physics 124 (12), 2006 | 169 | 2006 |
