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» Evolutionary Networks in the Formatted Protein Sequence Spac...
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BMCBI
2005
147views more  BMCBI 2005»
14 years 9 months ago
GATA: a graphic alignment tool for comparative sequence analysis
Background: Several problems exist with current methods used to align DNA sequences for comparative sequence analysis. Most dynamic programming algorithms assume that conserved se...
David A. Nix, Michael B. Eisen
BMCBI
2008
114views more  BMCBI 2008»
14 years 9 months ago
WSPMaker: a web tool for calculating selection pressure in proteins and domains using window-sliding
Background: In the study of adaptive evolution, it is important to detect the protein coding sites where natural selection is acting. In general, the ratio of the rate of non-syno...
Yong Seok Lee, Tae-Hyung Kim, Tae-Wook Kang, Won-H...
BMCBI
2007
126views more  BMCBI 2007»
14 years 9 months ago
High-throughput identification of interacting protein-protein binding sites
Background: With the advent of increasing sequence and structural data, a number of methods have been proposed to locate putative protein binding sites from protein surfaces. Ther...
Jo-Lan Chung, Wei Wang, Philip E. Bourne
BMCBI
2008
211views more  BMCBI 2008»
14 years 9 months ago
CPSP-tools - Exact and complete algorithms for high-throughput 3D lattice protein studies
Background: The principles of protein folding and evolution pose problems of very high inherent complexity. Often these problems are tackled using simplified protein models, e.g. ...
Martin Mann, Sebastian Will, Rolf Backofen
BMCBI
2007
148views more  BMCBI 2007»
14 years 9 months ago
Blast sampling for structural and functional analyses
Background: The post-genomic era is characterised by a torrent of biological information flooding the public databases. As a direct consequence, similarity searches starting with ...
Anne Friedrich, Raymond Ripp, Nicolas Garnier, Emm...