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BMCBI
2006
100views more  BMCBI 2006»
14 years 12 months ago
Using the nucleotide substitution rate matrix to detect horizontal gene transfer
Background: Horizontal gene transfer (HGT) has allowed bacteria to evolve many new capabilities. Because transferred genes perform many medically important functions, such as conf...
Micah Hamady, M. D. Betterton, Rob Knight
BMCBI
2006
139views more  BMCBI 2006»
14 years 12 months ago
Improvement in accuracy of multiple sequence alignment using novel group-to-group sequence alignment algorithm with piecewise li
Background: Multiple sequence alignment (MSA) is a useful tool in bioinformatics. Although many MSA algorithms have been developed, there is still room for improvement in accuracy...
Shinsuke Yamada, Osamu Gotoh, Hayato Yamana
BMCBI
2006
110views more  BMCBI 2006»
14 years 12 months ago
Modelling the network of cell cycle transcription factors in the yeast Saccharomyces cerevisiae
Background: Reverse-engineering regulatory networks is one of the central challenges for computational biology. Many techniques have been developed to accomplish this by utilizing...
Shawn Cokus, Sherri Rose, David Haynor, Niels Gr&o...
BMCBI
2006
87views more  BMCBI 2006»
14 years 12 months ago
Phylogeny based discovery of regulatory elements
Background: Algorithms that locate evolutionarily conserved sequences have become powerful tools for finding functional DNA elements, including transcription factor binding sites;...
Jason Gertz, Justin C. Fay, Barak A. Cohen
BMCBI
2006
143views more  BMCBI 2006»
14 years 12 months ago
Fast estimation of the difference between two PAM/JTT evolutionary distances in triplets of homologous sequences
Background: The estimation of the difference between two evolutionary distances within a triplet of homologs is a common operation that is used for example to determine which of t...
Christophe Dessimoz, Manuel Gil, Adrian Schneider,...
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