| Particle mesh Ewald: An N⋅log(N) method for Ewald sums in large systems T Darden, D York, L Pedersen The Journal of chemical physics 98 (12), 10089-10092, 1993 | 29390 | 1993 |
| A smooth particle mesh Ewald method U Essmann, L Perera, ML Berkowitz, T Darden, H Lee, LG Pedersen The Journal of chemical physics 103 (19), 8577-8593, 1995 | 21667 | 1995 |
| The Amber biomolecular simulation programs DA Case, TE Cheatham III, T Darden, H Gohlke, R Luo, KM Merz Jr, ... Journal of computational chemistry 26 (16), 1668-1688, 2005 | 9579 | 2005 |
| Amber 10 DA Case, TA Darden, TE Cheatham, CL Simmerling, J Wang, RE Duke, ... University of California, 2008 | 8798 | 2008 |
| Amber 2021 DA Case, HM Aktulga, K Belfon, I Ben-Shalom, SR Brozell, DS Cerutti, ... University of California, San Francisco, 2021 | 5402 | 2021 |
| AMBER 9 DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ... University of California, San Francisco 45, 2006 | 3472 | 2006 |
| The effect of long‐range electrostatic interactions in simulations of macromolecular crystals: A comparison of the Ewald and truncated list methods DM York, TA Darden, LG Pedersen The Journal of chemical physics 99 (10), 8345-8348, 1993 | 1083* | 1993 |
| Molecular dynamics simulations on solvated biomolecular systems: the particle mesh Ewald method leads to stable trajectories of DNA, RNA, and proteins TEIII Cheatham, JL Miller, T Fox, TA Darden, PA Kollman Journal of the American Chemical Society 117 (14), 4193-4194, 1995 | 991 | 1995 |
| Making optimal use of empirical energy functions: force‐field parameterization in crystal space E Krieger, T Darden, SB Nabuurs, A Finkelstein, G Vriend Proteins: Structure, Function, and Bioinformatics 57 (4), 678-683, 2004 | 990 | 2004 |
| Gene selection for sample classification based on gene expression data: study of sensitivity to choice of parameters of the GA/KNN method L Li, CR Weinberg, TA Darden, LG Pedersen Bioinformatics 17 (12), 1131-1142, 2001 | 850 | 2001 |
| Molecular dynamics simulations of biomolecules: long-range electrostatic effects C Sagui, TA Darden Annual review of biophysics and biomolecular structure 28 (1), 155-179, 1999 | 776 | 1999 |
| New tricks for modelers from the crystallography toolkit: the particle mesh Ewald algorithm and its use in nucleic acid simulations T Darden, L Perera, L Li, L Pedersen Structure 7 (3), R55-R60, 1999 | 724 | 1999 |
| AMBER 10; University of California: San Francisco, 2008 DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ... Google Scholar There is no corresponding record for this reference, 2008 | 528 | 2008 |
| Efficient particle-mesh Ewald based approach to fixed and induced dipolar interactions A Toukmaji, C Sagui, J Board, T Darden The Journal of chemical physics 113 (24), 10913-10927, 2000 | 498 | 2000 |
| AMBER 9; University of California: San Francisco, 2006 DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ... Google Scholar There is no corresponding record for this reference, 9-174, 2014 | 495 | 2014 |
| Anisotropic, polarizable molecular mechanics studies of inter-and intramolecular interactions and ligand− macromolecule complexes. A bottom-up strategy N Gresh, GA Cisneros, TA Darden, JP Piquemal Journal of chemical theory and computation 3 (6), 1960-1986, 2007 | 404 | 2007 |
| The coalescent process in models with selection NL Kaplan, T Darden, RR Hudson Genetics 120 (3), 819, 1988 | 323 | 1988 |
| AMBER11. University of California, San Francisco DA Case, TA Darden, TE Cheatham III, CL Simmerling, J Wang, RE Duke, ... Google Scholar There is no corresponding record for this reference, 2010 | 314 | 2010 |
| AMBER 14; University of California: San Francisco, 2014 DA Case, V Babin, JT Berryman, RM Betz, Q Cai, DS Cerutti, ... Google Scholar There is no corresponding record for this reference, 1-826, 2014 | 305* | 2014 |
| Simulation of Ca2+ and Mg2+ Solvation Using Polarizable Atomic Multipole Potential D Jiao, C King, A Grossfield, TA Darden, P Ren The journal of physical chemistry B 110 (37), 18553-18559, 2006 | 288 | 2006 |
