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» A Database Platform for Bioinformatics
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183
Voted
VLSID
2009
IEEE
177views VLSI» more  VLSID 2009»
16 years 5 months ago
Accelerating System-Level Design Tasks Using Commodity Graphics Hardware: A Case Study
Many system-level design tasks (e.g. timing analysis, hardware/software partitioning and design space exploration) involve computational kernels that are intractable (usually NP-ha...
Unmesh D. Bordoloi, Samarjit Chakraborty
KDD
2001
ACM
163views Data Mining» more  KDD 2001»
16 years 4 months ago
Learning to recognize brain specific proteins based on low-level features from on-line prediction servers
During the last decade, the area of bioinformatics has produced an overwhelming amount of data, with the recently published draft of the human genome being the most prominent exam...
Henrik Boström, Joakim Cöster, Lars Aske...
SASP
2009
IEEE
291views Hardware» more  SASP 2009»
15 years 11 months ago
A parameterisable and scalable Smith-Waterman algorithm implementation on CUDA-compatible GPUs
—This paper describes a multi-threaded parallel design and implementation of the Smith-Waterman (SM) algorithm on compute unified device architecture (CUDA)-compatible graphic pr...
Cheng Ling, Khaled Benkrid, Tsuyoshi Hamada
IPPS
2009
IEEE
15 years 11 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 ...
CIKM
2009
Springer
15 years 11 months ago
Linear predictive coding representation of correlated mutation for protein sequence alignment
Background: Although both conservation and correlated mutation (CM) are important information reflecting the different sorts of context in multiple sequence alignment, most of ali...
Chan-seok Jeong, Dongsup Kim