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» Spatio-Temporal Alignment of Sequences
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BMCBI
2005
142views more  BMCBI 2005»
13 years 7 months ago
transAlign: using amino acids to facilitate the multiple alignment of protein-coding DNA sequences
Background: Alignments of homologous DNA sequences are crucial for comparative genomics and phylogenetic analysis. However, multiple alignment represents a computationally difficu...
Olaf R. P. Bininda-Emonds
CJ
2008
90views more  CJ 2008»
13 years 7 months ago
Parameterized Complexity and Biopolymer Sequence Comparison
The article surveys parameterized algorithms and complexities for computational tasks on biopolymer sequences, including the problems of longest common subsequence, shortest commo...
Liming Cai, Xiuzhen Huang, Chunmei Liu, Frances A....
RECOMB
2009
Springer
14 years 8 months ago
Simultaneous Alignment and Folding of Protein Sequences
Abstract. Accurate comparative analysis tools for low-homology proteins remains a difficult challenge in computational biology, especially sequence alignment and consensus folding ...
Bonnie Berger, Charles W. O'Donnell, Jér&oc...
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
BMCBI
2007
107views more  BMCBI 2007»
13 years 7 months ago
Progressive multiple sequence alignments from triplets
Motivation: The quality of progressive sequence alignments strongly depends on the accuracy of the individual pairwise alignment steps since gaps that are introduced at one step c...
Matthias Kruspe, Peter F. Stadler