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BMCBI
2004
125views more  BMCBI 2004»
13 years 9 months ago
A fast algorithm for determining the best combination of local alignments to a query sequence
Background: Existing sequence alignment algorithms assume that similarities between DNA or amino acid sequences are linearly ordered. That is, stretches of similar nucleotides or ...
Gavin C. Conant, Andreas Wagner
ICPP
2007
IEEE
14 years 3 months ago
Efficient Parallel Algorithm for Optimal Three-Sequences Alignment
Sequence alignment is a fundamental problem in the computational biology. Many alignment methods have been proposed in the literature, such as pair-wise sequence alignment (2SA), ...
Chun-Yuan Lin, Chen Tai Huang, Yeh-Ching Chung, Ch...
GECCO
2006
Springer
159views Optimization» more  GECCO 2006»
14 years 22 days ago
Identification of weak motifs in multiple biological sequences using genetic algorithm
Recognition of motifs in multiple unaligned sequences provides an insight into protein structure and function. The task of discovering these motifs is very challenging because mos...
Topon Kumar Paul, Hitoshi Iba
SDM
2003
SIAM
156views Data Mining» more  SDM 2003»
13 years 10 months ago
Detection of Underrepresented Biological Sequences using Class-Conditional Distribution Models
A labeled sequence data set related to a certain biological property is often biased and, therefore, does not completely capture its diversity in nature. To reduce this sampling b...
Slobodan Vucetic, Dragoljub Pokrajac, Hongbo Xie, ...
TCBB
2008
120views more  TCBB 2008»
13 years 9 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