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» Progressive multiple sequence alignments from triplets
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CISIS
2010
IEEE
14 years 2 months ago
Scalability Analysis of Progressive Alignment on a Multicore
—Sequence alignment is a fundamental instrument in Bioinformatics. In recent years, numerous proposals have been addressing the problem of accelerating this class of applications...
Sebastian Isaza, Friman Sánchez, Georgi Gay...
BMCBI
2005
125views more  BMCBI 2005»
13 years 7 months ago
Multiple sequence alignments of partially coding nucleic acid sequences
Background: High quality sequence alignments of RNA and DNA sequences are an important prerequisite for the comparative analysis of genomic sequence data. Nucleic acid sequences, ...
Roman R. Stocsits, Ivo L. Hofacker, Claudia Fried,...
PPSN
2004
Springer
14 years 27 days ago
An Evolutionary Algorithm for the Maximum Weight Trace Formulation of the Multiple Sequence Alignment Problem
Abstract. The multiple sequence alignment problem (MSA) can be reformulated as the problem of finding a maximum weight trace in an alignment graph, which is derived from all pairw...
Gabriele Koller, Günther R. Raidl
GECCO
2004
Springer
137views Optimization» more  GECCO 2004»
14 years 28 days ago
Evolving Better Multiple Sequence Alignments
Aligning multiple DNA or protein sequences is a fundamental step in the analyses of phylogeny, homology and molecular structure. Heuristic algorithms are applied because optimal mu...
Luke Sheneman, James A. Foster
TCBB
2008
120views more  TCBB 2008»
13 years 7 months ago
Learning Scoring Schemes for Sequence Alignment from Partial Examples
When aligning biological sequences, the choice of scoring scheme is critical. Even small changes in gap penalties, for example, can yield radically different alignments. A rigorous...
Eagu Kim, John D. Kececioglu