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NAR
2006
128views more  NAR 2006»
13 years 4 months ago
Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee
Expresso is a multiple sequence alignment server that aligns sequences using structural information. The user only needs to provide sequences. The server runs BLAST to identify cl...
Fabrice Armougom, Sébastien Moretti, Olivie...
BMCBI
2008
140views more  BMCBI 2008»
13 years 4 months ago
Improved accuracy of multiple ncRNA alignment by incorporating structural information into a MAFFT-based framework
Background: Structural alignment of RNAs is becoming important, since the discovery of functional non-coding RNAs (ncRNAs). Recent studies, mainly based on various approximations ...
Kazutaka Katoh, Hiroyuki Toh
BMCBI
2006
140views more  BMCBI 2006»
13 years 4 months ago
MACSIMS : multiple alignment of complete sequences information management system
Background: In the post-genomic era, systems-level studies are being performed that seek to explain complex biological systems by integrating diverse resources from fields such as...
Julie D. Thompson, Arnaud Muller, Andrew M. Waterh...
BMCBI
2006
139views more  BMCBI 2006»
13 years 4 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
117views more  BMCBI 2006»
13 years 4 months ago
Incorporating background frequency improves entropy-based residue conservation measures
Background: Several entropy-based methods have been developed for scoring sequence conservation in protein multiple sequence alignments. High scoring amino acid positions may corr...
Kai Wang, Ram Samudrala