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WABI
2007
Springer
123views Bioinformatics» more  WABI 2007»
14 years 1 months ago
Inverse Sequence Alignment from Partial Examples
When aligning biological sequences, the choice of parameter values for the alignment scoring function is critical. Small changes in gap penalties, for example, can yield radically ...
Eagu Kim, John D. Kececioglu
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
2005
137views more  BMCBI 2005»
13 years 7 months ago
A configuration space of homologous proteins conserving mutual information and allowing a phylogeny inference based on pair-wise
Background: Popular methods to reconstruct molecular phylogenies are based on multiple sequence alignments, in which addition or removal of data may change the resulting tree topo...
Olivier Bastien, Philippe Ortet, Sylvaine Roy, Eri...
BIOCOMP
2007
13 years 9 months ago
Towards Phylogenomic Reconstruction
Reconstructing phylogenies is one of the primary objectives in evolution studies. Efficient software to reconstruct phylogenies based on isolated genes has existed for decades, ye...
Le Vinh, Andres Varon, Daniel Janies, Ward Wheeler
BMCBI
2007
120views more  BMCBI 2007»
13 years 7 months ago
Phylo-mLogo: an interactive and hierarchical multiple-logo visualization tool for alignment of many sequences
Background: When aligning several hundreds or thousands of sequences, such as epidemic virus sequences or homologous/orthologous sequences of some big gene families, to reconstruc...
Arthur Chun-Chieh Shih, D. T. Lee, Chin-Lin Peng, ...