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ISCA
2007
IEEE
196views Hardware» more  ISCA 2007»
13 years 11 months ago
Anton, a special-purpose machine for molecular dynamics simulation
The ability to perform long, accurate molecular dynamics (MD) simulations involving proteins and other biological macromolecules could in principle provide answers to some of the ...
David E. Shaw, Martin M. Deneroff, Ron O. Dror, Je...
SAMOS
2007
Springer
13 years 10 months ago
An Evolutionary Approach to Area-Time Optimization of FPGA designs
—This paper presents a new methodology based on evolutionary multi-objective optimization (EMO) to synthesize multiple complex modules on programmable devices (FPGAs). It starts ...
Fabrizio Ferrandi, Pier Luca Lanzi, Gianluca Paler...
BCB
2010
140views Bioinformatics» more  BCB 2010»
12 years 11 months ago
Guiding belief propagation using domain knowledge for protein-structure determination
A major bottleneck in high-throughput protein crystallography is producing protein-structure models from an electrondensity map. In previous work, we developed Acmi, a probabilist...
Ameet Soni, Craig A. Bingman, Jude W. Shavlik
PPSN
2000
Springer
13 years 8 months ago
Optimizing through Co-evolutionary Avalanches
Abstract. We explore a new general-purpose heuristic for nding highquality solutions to hard optimization problems. The method, called extremal optimization, is inspired by self-or...
Stefan Boettcher, Allon G. Percus, Michelangelo Gr...
JPDC
2006
146views more  JPDC 2006»
13 years 4 months ago
A semi-static approach to mapping dynamic iterative tasks onto heterogeneous computing systems
Minimization of the execution time of an iterative application in a heterogeneous parallel computing environment requires an appropriate mapping scheme for matching and scheduling...
Yu-Kwong Kwok, Anthony A. Maciejewski, Howard Jay ...