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» Computing Molecular Potential Energy Surface with DIET
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99
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ERSA
2007
142views Hardware» more  ERSA 2007»
15 years 3 months ago
An FPGA Implementation of Reciprocal Sums for SPME
Molecular Dynamics simulations have become an interesting target for acceleration using Field-Programmable Gate Arrays (FPGA). Still to be attempted completely in FPGA hardware is...
Sam Lee, Paul Chow
171
Voted
CCE
2011
14 years 8 months ago
Computational energy-based redesign of robust proteins
The robustness of a system is a property that pervades all aspects of Nature. The ability of a system to adapt itself to perturbations due to internal and external agents, to agin...
Giovanni Stracquadanio, Giuseppe Nicosia
87
Voted
JCC
2010
95views more  JCC 2010»
15 years 8 days ago
Computational studies on electron and proton transfer in phenol-imidazole-base triads
: The electron and proton transfer in phenol-imidazole-base systems (base 5 NH2 2 or OH2 ) were investigated by density-functional theory calculations. In particular, the role of b...
Shihai Yan, Sunwoo Kang, Tomoyuki Hayashi, Shaul M...
92
Voted
STOC
2003
ACM
136views Algorithms» more  STOC 2003»
16 years 2 months ago
Alpha-shapes and flow shapes are homotopy equivalent
In this paper we establish a topological similarity between two apparently different shape constructors from a set of points. Shape constructors are geometric structures that tran...
Tamal K. Dey, Joachim Giesen, Matthias John
ISMB
1996
15 years 3 months ago
A Knowledge-Based Method for Protein Structure Refinement and Prediction
The native conformation of a protein, in a given environment, is determined entirely by the various interatomic interactions dictated by the amino acid sequence (1-3). We describe...
Shankar Subramaniam, David K. Tcheng, James M. Fen...