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CCGRID
2005
IEEE
13 years 11 months ago
Secret sequence comparison on public grid computing resources
Once a new gene has been sequenced, it must be verified whether or not it is similar to previously sequenced genes. In many cases, the organization that sequenced a potentially n...
Ken-ichi Kurata, Hiroshi Nakamura, Vincent Breton
HPDC
2010
IEEE
13 years 6 months ago
MPIPairwiseStatSig: parallel pairwise statistical significance estimation of local sequence alignment
Sequence comparison is considered as a cornerstone application in bioinformatics, which forms the basis of many other applications. In particular, pairwise sequence alignment is a...
Ankit Agrawal, Sanchit Misra, Daniel Honbo, Alok N...
CLUSTER
2003
IEEE
13 years 10 months ago
A Case Study of Parallel I/O for Biological Sequence Search on Linux Clusters
In this paper we analyze the I/O access patterns of a widely-used biological sequence search tool and implement two variations that employ parallel-I/O for data access based on PV...
Yifeng Zhu, Hong Jiang, Xiao Qin, David R. Swanson
RIVF
2008
13 years 6 months ago
Speeding up subset seed algorithm for intensive protein sequence comparison
Abstract--Sequence similarity search is a common and repeated task in molecular biology. The rapid growth of genomic databases leads to the need of speeding up the treatment of thi...
Van Hoa Nguyen, Dominique Lavenier
SBACPAD
2003
IEEE
120views Hardware» more  SBACPAD 2003»
13 years 10 months ago
Comparison of Genomes Using High-Performance Parallel Computing
Comparison of the DNA sequences and genes of two genomes can be useful to investigate the common functionalities of the corresponding organisms and get a better understanding of h...
Nalvo F. Almeida Jr., Carlos E. R. Alves, Edson C&...