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» Spatio-Temporal Alignment of Sequences
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BIBE
2008
IEEE
142views Bioinformatics» more  BIBE 2008»
14 years 3 months ago
Optimizing performance, cost, and sensitivity in pairwise sequence search on a cluster of PlayStations
— The Smith-Waterman algorithm is a dynamic programming method for determining optimal local alignments between nucleotide or protein sequences. However, it suffers from quadrati...
Ashwin M. Aji, Wu-chun Feng
IPPS
2006
IEEE
14 years 3 months ago
Parallel implementation and performance characterization of MUSCLE
Multiple sequence alignment is a fundamental and very computationally intensive task in molecular biology. MUSCLE, a new algorithm for creating multiple alignments of protein sequ...
Xi Deng, Eric Li, Jiulong Shan, Wenguang Chen
ALMOB
2008
81views more  ALMOB 2008»
13 years 9 months ago
Stability of multiple alignments and phylogenetic trees: an analysis of ABC-transporter proteins family
Background: Sequence-based phylogeny reconstruction is a fundamental task in Bioinformatics. Practically all methods for phylogeny reconstruction are based on multiple alignments....
Holger Wagner, Burkhard Morgenstern, Andreas W. M....
BMCBI
2007
136views more  BMCBI 2007»
13 years 9 months ago
Comparison of protein structures by growing neighborhood alignments
Background: Design of protein structure comparison algorithm is an important research issue, having far reaching implications. In this article, we describe a protein structure com...
Sourangshu Bhattacharya, Chiranjib Bhattacharyya, ...
DATAMINE
2006
142views more  DATAMINE 2006»
13 years 9 months ago
Sequential Pattern Mining in Multi-Databases via Multiple Alignment
To efficiently find global patterns from a multi-database, information in each local database must first be mined and summarized at the local level. Then only the summarized infor...
Hye-Chung Kum, Joong Hyuk Chang, Wei Wang 0010