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» PIR-ALN: a database of protein sequence alignments
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BMCBI
2007
124views more  BMCBI 2007»
13 years 7 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
14 years 2 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»
13 years 7 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»
13 years 7 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»
13 years 7 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