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IPPS
1999
IEEE
13 years 9 months ago
Parallel Biological Sequence Comparison Using Prefix Computations
We present practical parallel algorithms using prefix computations for various problems that arise in pairwise comparison of biological sequences. We consider both constant and af...
Srinivas Aluru, Natsuhiko Futamura, Kishan Mehrotr...
IPPS
2007
IEEE
13 years 11 months ago
Reconfigurable Architecture for Biological Sequence Comparison in Reduced Memory Space
DNA sequence alignment is a very important problem in bioinformatics. The algorithm proposed by Smith-Waterman (SW) is an exact method that obtains optimal local alignments in qua...
Azzedine Boukerche, Jan Mendonca Correa, Alba Cris...
ICPADS
2005
IEEE
13 years 10 months ago
Exploiting Multi-level Parallelism for Homology Search using General Purpose Processors
New biological experimental techniques are continuing to generate large amounts of data using DNA, RNA, human genome and protein sequences. The quantity and quality of data from t...
Xiandong Meng, Vipin Chaudhary
CCECE
2006
IEEE
13 years 10 months ago
Survey of Biological High Performance Computing: Algorithms, Implementations and Outlook Research
During recent years there has been an explosive growth of biological data coming from genome projects, proteomics, protein structure determination, and the rapid expansion in digi...
Nasreddine Hireche, J. M. Pierre Langlois, Gabriel...
TPDS
1998
112views more  TPDS 1998»
13 years 4 months ago
Parallel Computation in Biological Sequence Analysis
—A massive volume of biological sequence data is available in over 36 different databases worldwide, including the sequence data generated by the Human Genome project. These data...
Tieng K. Yap, Ophir Frieder, Robert L. Martino