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BMCBI
2011
12 years 11 months ago
Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
Background: The Smith-Waterman algorithm for local sequence alignment is more sensitive than heuristic methods for database searching, but also more time-consuming. The fastest ap...
Torbjørn Rognes
BMCBI
2008
144views more  BMCBI 2008»
13 years 7 months ago
Rule-based knowledge aggregation for large-scale protein sequence analysis of influenza A viruses
Background: The explosive growth of biological data provides opportunities for new statistical and comparative analyses of large information sets, such as alignments comprising te...
Olivo Miotto, Tin Wee Tan, Vladimir Brusic
BMCBI
2007
149views more  BMCBI 2007»
13 years 7 months ago
SAMPI: Protein Identification with Mass Spectra Alignments
Background: Mass spectrometry based peptide mass fingerprints (PMFs) offer a fast, efficient, and robust method for protein identification. A protein is digested (usually by tryps...
Hans-Michael Kaltenbach, Andreas Wilke, Sebastian ...
BMCBI
2006
242views more  BMCBI 2006»
13 years 7 months ago
Predicting residue-wise contact orders in proteins by support vector regression
Background: The residue-wise contact order (RWCO) describes the sequence separations between the residues of interest and its contacting residues in a protein sequence. It is a ne...
Jiangning Song, Kevin Burrage
BMCBI
2004
211views more  BMCBI 2004»
13 years 7 months ago
GenomeViz: visualizing microbial genomes
Background: An increasing number of microbial genomes are being sequenced and deposited in public databases. In addition, several closely related strains are also being sequenced ...
Rohit Ghai, Torsten Hain, Trinad Chakraborty