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» Exploiting Chaos for Computation
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IPPS
2009
IEEE
16 years 1 months ago
Accelerating HMMer on FPGAs using systolic array based architecture
HMMer is a widely-used bioinformatics software package that uses profile HMMs (Hidden Markov Models) to model the primary structure consensus of a family of protein or nucleic aci...
Yanteng Sun, Peng Li, Guochang Gu, Yuan Wen, Yuan ...
IPPS
2009
IEEE
16 years 1 months ago
Annotation-based empirical performance tuning using Orio
In many scientific applications, significant time is spent tuning codes for a particular highperformance architecture. Tuning approaches range from the relatively nonintrusive (...
Albert Hartono, Boyana Norris, Ponnuswamy Sadayapp...
IPPS
2008
IEEE
16 years 1 months ago
High-speed string searching against large dictionaries on the Cell/B.E. Processor
Our digital universe is growing, creating exploding amounts of data which need to be searched, protected and filtered. String searching is at the core of the tools we use to curb...
Daniele Paolo Scarpazza, Oreste Villa, Fabrizio Pe...
AB
2008
Springer
16 years 1 months ago
An Algorithm for Qualitative Simulation of Gene Regulatory Networks with Steep Sigmoidal Response Functions
A specific class of ODEs has been shown to be adequate to describe the essential features of the complex dynamics of Gene-Regulatory Networks (GRN). But, the effective exploitatio...
Liliana Ironi, Luigi Panzeri, Erik Plahte
IPPS
2007
IEEE
16 years 1 months ago
A Performance Prediction Framework for Grid-Based Data Mining Applications
For a grid middleware to perform resource allocation, prediction models are needed, which can determine how long an application will take for completion on a particular platform o...
Leonid Glimcher, Gagan Agrawal