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WABI
2007
Springer
14 years 3 months ago
Predicting Protein Folding Kinetics Via Temporal Logic Model Checking
Christopher James Langmead⋆ and Sumit Kumar Jha Department of Computer Science, Carnegie Mellon University We present a novel approach for predicting protein folding kinetics us...
Christopher James Langmead, Sumit Kumar Jha
WABI
2007
Springer
110views Bioinformatics» more  WABI 2007»
14 years 3 months ago
Haplotype Inference Via Hierarchical Genotype Parsing
The within-species genetic variation due to recombinations leads to a mosaic-like structure of DNA. This structure can be modeled, e.g. by parsing sample sequences of current DNA w...
Pasi Rastas, Esko Ukkonen
FCCM
2006
IEEE
137views VLSI» more  FCCM 2006»
14 years 3 months ago
Single Pass, BLAST-Like, Approximate String Matching on FPGAs
Abstract: Approximate string matching is fundamental to bioinformatics, and has been the subject of numerous FPGA acceleration studies. We address issues with respect to FPGA imple...
Martin C. Herbordt, Josh Model, Yongfeng Gu, Bhara...
IEEEPACT
2005
IEEE
14 years 3 months ago
Exploiting Coarse-Grained Parallelism to Accelerate Protein Motif Finding with a Network Processor
While general-purpose processors have only recently employed chip multiprocessor (CMP) architectures, network processors (NPs) have used heterogeneous multi-core architectures sin...
Ben Wun, Jeremy Buhler, Patrick Crowley
HIPC
2005
Springer
14 years 3 months ago
Design and Implementation of the HPCS Graph Analysis Benchmark on Symmetric Multiprocessors
Graph theoretic problems are representative of fundamental computations in traditional and emerging scientific disciplines like scientific computing, computational biology and b...
David A. Bader, Kamesh Madduri