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BMCBI
2007
124views more  BMCBI 2007»
13 years 4 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...
SISAP
2008
IEEE
166views Data Mining» more  SISAP 2008»
13 years 11 months ago
Approximate Similarity Search in Genomic Sequence Databases Using Landmark-Guided Embedding
Similarity search in sequence databases is of paramount importance in bioinformatics research. As the size of the genomic databases increases, similarity search of proteins in the...
Ahmet Sacan, Ismail Hakki Toroslu
GCB
2004
Springer
223views Biometrics» more  GCB 2004»
13 years 8 months ago
PoSSuMsearch: Fast and Sensitive Matching of Position Specific Scoring Matrices using Enhanced Suffix Arrays
: In biological sequence analysis, position specific scoring matrices (PSSMs) are widely used to represent sequence motifs. In this paper, we present a new nonheuristic algorithm, ...
Michael Beckstette, Dirk Strothmann, Robert Homann...
BMCBI
2007
135views more  BMCBI 2007»
13 years 4 months ago
Sequence similarity is more relevant than species specificity in probabilistic backtranslation
Background: Backtranslation is the process of decoding a sequence of amino acids into the corresponding codons. All synthetic gene design systems include a backtranslation module....
Alfredo Ferro, Rosalba Giugno, Giuseppe Pigola, Al...
NAR
2006
129views more  NAR 2006»
13 years 4 months ago
AliWABA: alignment on the web through an A-Bruijn approach
Multiple sequence alignment programs are an invaluable tool in computational biology. A-Bruijn Alignment (ABA) is a method for multiple sequence alignment that represents an align...
Neil C. Jones, Degui Zhi, Benjamin J. Raphael