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» On numbers of Davenport-Schinzel sequences
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BMCBI
2006
143views more  BMCBI 2006»
15 years 1 months ago
IsoSVM - Distinguishing isoforms and paralogs on the protein level
Background: Recent progress in cDNA and EST sequencing is yielding a deluge of sequence data. Like database search results and proteome databases, this data gives rise to inferred...
Michael Spitzer, Stefan Lorkowski, Paul Cullen, Al...
BMCBI
2006
87views more  BMCBI 2006»
15 years 1 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
117views more  BMCBI 2006»
15 years 1 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
NAR
2006
119views more  NAR 2006»
15 years 1 months ago
ChloroplastDB: the Chloroplast Genome Database
The Chloroplast Genome Database (ChloroplastDB) is an interactive, web-based database for fully sequenced plastid genomes, containing genomic, protein, DNA and RNA sequences, gene...
Liying Cui, Narayanan Veeraraghavan, Alexander Ric...
BMCBI
2004
150views more  BMCBI 2004»
15 years 1 months ago
SS-Wrapper: a package of wrapper applications for similarity searches on Linux clusters
Background: Large-scale sequence comparison is a powerful tool for biological inference in modern molecular biology. Comparing new sequences to those in annotated databases is a u...
Chunlin Wang, Elliot J. Lefkowitz