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CODES
2005
IEEE
14 years 1 months ago
Blue matter on blue gene/L: massively parallel computation for biomolecular simulation
This paper provides an overview of the Blue Matter application development effort within the Blue Gene project that supports our scientific simulation efforts in the areas of pro...
Robert S. Germain, Blake G. Fitch, Aleksandr Raysh...
ASAP
2007
IEEE
157views Hardware» more  ASAP 2007»
13 years 12 months ago
Automatic Generation and Optimisation of Reconfigurable Financial Monte-Carlo Simulations
Monte-Carlo simulations are used in many applications, such as option pricing and portfolio evaluation. Due to their high computational load and intrinsic parallelism, they are id...
David B. Thomas, Jacob A. Bower, Wayne Luk
BMCBI
2008
214views more  BMCBI 2008»
13 years 8 months ago
Accelerating String Set Matching in FPGA Hardware for Bioinformatics Research
Background: This paper describes techniques for accelerating the performance of the string set matching problem with particular emphasis on applications in computational proteomic...
Yoginder S. Dandass, Shane C. Burgess, Mark Lawren...
ERSA
2006
150views Hardware» more  ERSA 2006»
13 years 9 months ago
An Area Time Efficient Field Programmable Mersenne Twister Uniform Random Number Generator
Reconfigurable computing offers an attractive solution to accelerating infrared scene simulations. In infrared scene simulations, the modeling of a number of atmospheric and optic...
Vinay Sriram, David Kearney
BMCBI
2008
128views more  BMCBI 2008»
13 years 8 months ago
Pairwise covariance adds little to secondary structure prediction but improves the prediction of non-canonical local structure
Background: Amino acid sequence probability distributions, or profiles, have been used successfully to predict secondary structure and local structure in proteins. Profile models ...
Christopher Bystroff, Bobbie-Jo M. Webb-Robertson