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James C Phillips
James C Phillips
Senior Research Programmer, National Center for Supercomputing Applications, University of Illinois
Verified email at illinois.edu - Homepage
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Cited by
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Scalable molecular dynamics with NAMD
JC Phillips, R Braun, W Wang, J Gumbart, E Tajkhorshid, E Villa, C Chipot, ...
Journal of computational chemistry 26 (16), 1781-1802, 2005
184292005
NAMD2: greater scalability for parallel molecular dynamics
L Kalé, R Skeel, M Bhandarkar, R Brunner, A Gursoy, N Krawetz, ...
Journal of Computational Physics 151 (1), 283-312, 1999
29571999
GPU computing
JD Owens, M Houston, D Luebke, S Green, JE Stone, JC Phillips
Proceedings of the IEEE 96 (5), 879-899, 2008
28432008
Scalable molecular dynamics on CPU and GPU architectures with NAMD
JC Phillips, DJ Hardy, JDC Maia, JE Stone, JV Ribeiro, RC Bernardi, ...
The Journal of chemical physics 153 (4), 2020
16972020
Accelerating molecular modeling applications with graphics processors
JE Stone, JC Phillips, PL Freddolino, DJ Hardy, LG Trabuco, K Schulten
Journal of computational chemistry 28 (16), 2618-2640, 2007
9292007
NAMD: Biomolecular simulation on thousands of processors
JC Phillips, G Zheng, S Kumar, LV Kalé
SC'02: Proceedings of the 2002 ACM/IEEE Conference on Supercomputing, 36-36, 2002
3612002
GPU clusters for high-performance computing
VV Kindratenko, JJ Enos, G Shi, MT Showerman, GW Arnold, JE Stone, ...
2009 IEEE International Conference on Cluster Computing and Workshops, 1-8, 2009
3212009
High-performance scalable molecular dynamics simulations of a polarizable force field based on classical Drude oscillators in NAMD
W Jiang, DJ Hardy, JC Phillips, AD MacKerell Jr, K Schulten, B Roux
The journal of physical chemistry letters 2 (2), 87-92, 2011
2852011
Adapting a message-driven parallel application to GPU-accelerated clusters
JC Phillips, JE Stone, K Schulten
SC'08: Proceedings of the 2008 ACM/IEEE Conference on Supercomputing, 1-9, 2008
2422008
Predicting the structure of apolipoprotein AI in reconstituted high-density lipoprotein disks
JC Phillips, W Wriggers, Z Li, A Jonas, K Schulten
Biophysical journal 73 (5), 2337-2346, 1997
1971997
QwikMD—integrative molecular dynamics toolkit for novices and experts
JV Ribeiro, RC Bernardi, T Rudack, JE Stone, JC Phillips, PL Freddolino, ...
Scientific reports 6 (1), 26536, 2016
1812016
NAMD goes quantum: an integrative suite for hybrid simulations
MCR Melo, RC Bernardi, T Rudack, M Scheurer, C Riplinger, JC Phillips, ...
Nature methods 15 (5), 351-354, 2018
1762018
Molecular dynamics simulations of discoidal bilayers assembled from truncated human lipoproteins
AY Shih, IG Denisov, JC Phillips, SG Sligar, K Schulten
Biophysical journal 88 (1), 548-556, 2005
1622005
Constant-pH molecular dynamics simulations for large biomolecular systems
BK Radak, C Chipot, D Suh, S Jo, W Jiang, JC Phillips, K Schulten, ...
Journal of chemical Theory and Computation 13 (12), 5933-5944, 2017
1552017
Parallel generalized Born implicit solvent calculations with NAMD
DE Tanner, KY Chan, JC Phillips, K Schulten
Journal of chemical theory and computation 7 (11), 3635-3642, 2011
1552011
AI-driven multiscale simulations illuminate mechanisms of SARS-CoV-2 spike dynamics
L Casalino, AC Dommer, Z Gaieb, EP Barros, T Sztain, SH Ahn, A Trifan, ...
The International Journal of High Performance Computing Applications 35 (5 …, 2021
1482021
Scalable molecular dynamics with NAMD on the IBM Blue Gene/L system
S Kumar, C Huang, G Zheng, E Bohm, A Bhatele, JC Phillips, H Yu, ...
IBM Journal of Research and Development 52 (1.2), 177-188, 2008
1352008
Generalized scalable multiple copy algorithms for molecular dynamics simulations in NAMD
W Jiang, JC Phillips, L Huang, M Fajer, Y Meng, JC Gumbart, Y Luo, ...
Computer physics communications 185 (3), 908-916, 2014
1322014
Molecular dynamics study of bacteriorhodopsin and the purple membrane
J Baudry, E Tajkhorshid, F Molnar, J Phillips, K Schulten
The Journal of Physical Chemistry B 105 (5), 905-918, 2001
1312001
Atoms to phenotypes: molecular design principles of cellular energy metabolism
A Singharoy, C Maffeo, KH Delgado-Magnero, DJK Swainsbury, M Sener, ...
Cell 179 (5), 1098-1111. e23, 2019
1262019
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