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SC
2000
ACM
15 years 7 months ago
Scalable Molecular Dynamics for Large Biomolecular Systems
We present an optimized parallelization scheme for molecular dynamics simulations of large biomolecular systems, implemented in the production-quality molecular dynamics program N...
Robert Brunner, James C. Phillips, Laxmikant V. Ka...
ICCS
2007
Springer
15 years 9 months ago
A General Long-Time Molecular Dynamics Scheme in Atomistic Systems: Hyperdynamics in Entropy Dominated Systems
Abstract. We extend the hyperdynamics method developed for lowdimensional energy-dominated systems, to simulate slow dynamics in more general atomistic systems. We show that a few ...
Xin Zhou, Yi Jiang
148
Voted
ICS
2009
Tsinghua U.
15 years 10 months ago
Dynamic topology aware load balancing algorithms for molecular dynamics applications
Molecular Dynamics applications enhance our understanding of biological phenomena through bio-molecular simulations. Large-scale parallelization of MD simulations is challenging b...
Abhinav Bhatele, Laxmikant V. Kalé, Sameer ...
112
Voted
EH
1999
IEEE
122views Hardware» more  EH 1999»
15 years 7 months ago
The MorphoSys Dynamically Reconfigurable System-on-Chip
MorphoSys is a system-on-chip which combines a RISC processor with an array of reconfigurable cells. The important features of MorphoSys are coarse-grain granularity, dynamic reco...
Guangming Lu, Hartej Singh, Ming-Hau Lee, Nader Ba...
HIPC
2003
Springer
15 years 8 months ago
Performance Analysis of Blue Gene/L Using Parallel Discrete Event Simulation
High performance computers currently under construction, such as IBM’s Blue Gene/L, consisting of large numbers (64K) of low cost processing elements with relatively small local...
Ed Upchurch, Paul L. Springer, Maciej Brodowicz, S...