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» PIR-ALN: a database of protein sequence alignments
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BMCBI
2007
124views more  BMCBI 2007»
14 years 11 months ago
Protein structural similarity search by Ramachandran codes
Background: Protein structural data has increased exponentially, such that fast and accurate tools are necessary to access structure similarity search. To improve the search speed...
Wei-Cheng Lo, Po-Jung Huang, Chih-Hung Chang, Ping...
ICASSP
2008
IEEE
15 years 5 months ago
Fusion of cleavage site detection and pairwise alignment for fast subcellular localization
In recent years, homology-based and signal-based methods have been proposed for predicting the subcellular localization of proteins. While it has been known that homology-based me...
Man-Wai Mak, Sun-Yuan Kung
JCB
2007
106views more  JCB 2007»
14 years 10 months ago
Clustered Sequence Representation for Fast Homology Search
We present a novel approach to managing redundancy in sequence databanks such as GenBank. We store clusters of near-identical sequences as a representative union-sequence and a se...
Michael Cameron, Yaniv Bernstein, Hugh E. Williams
BMCBI
2007
148views more  BMCBI 2007»
14 years 11 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...
BMCBI
2005
162views more  BMCBI 2005»
14 years 10 months ago
Accelerated probabilistic inference of RNA structure evolution
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...
Ian Holmes