| 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 | 9737 | 2005 |
| Amber 2021 DA Case, HM Aktulga, K Belfon, I Ben-Shalom, SR Brozell, DS Cerutti, ... University of California, San Francisco, 2021 | 5429 | 2021 |
| 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 | 2628 | 2004 |
| 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 | 1605 | 2005 |
| 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 | 1577 | 2012 |
| 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 | 1217 | 2000 |
| Building water models: a different approach S Izadi, R Anandakrishnan, AV Onufriev The journal of physical chemistry letters 5 (21), 3863-3871, 2014 | 832 | 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 | 724 | 2003 |
| 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 | 561 | 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 | 439 | 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 | 349 | 2006 |
| Accuracy limit of rigid 3-point water models S Izadi, AV Onufriev The Journal of chemical physics 145 (7), 2016 | 262 | 2016 |
| AMBER 2018, University of California, San Francisco, 2018 DA Case, JT Berryman, RM Betz, DS Cerutti, TE Cheatham III, TA Darden, ... There is no corresponding record for this reference, 2015 | 250 | 2015 |
| A novel view of pH titration in biomolecules A Onufriev, A David, GM Ullmann Biochemistry 40 (12), 3413-3419, 2001 | 242 | 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 | 213 | 2015 |
| Generalized Born implicit solvent models for biomolecules AV Onufriev, DA Case Annual review of biophysics 48 (1), 275-296, 2019 | 209 | 2019 |
| AmberTools DA Case, HM Aktulga, K Belfon, DS Cerutti, GA Cisneros, VWD Cruzeiro, ... Journal of chemical information and modeling 63 (20), 6183-6191, 2023 | 201 | 2023 |
| Protonation and pK changes in protein–ligand binding AV Onufriev, E Alexov Quarterly reviews of biophysics 46 (2), 181-209, 2013 | 183 | 2013 |
| Water models for biomolecular simulations AV Onufriev, S Izadi Wiley Interdisciplinary Reviews: Computational Molecular Science 8 (2), e1347, 2018 | 182 | 2018 |
| Analytical electrostatics for biomolecules: Beyond the generalized Born approximation G Sigalov, A Fenley, A Onufriev The Journal of chemical physics 124 (12), 2006 | 158 | 2006 |
