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» The UCSC genome browser database: update 2007
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BMCBI
2006
136views more  BMCBI 2006»
13 years 6 months ago
Java GUI for InterProScan (JIPS): A tool to help process multiple InterProScans and perform ortholog analysis
Background: Recent, rapid growth in the quantity of available genomic data has generated many protein sequences that are not yet biochemically classified. Thus, the prediction of ...
Aijazuddin Syed, Chris Upton
POPL
2008
ACM
14 years 6 months ago
Boomerang: resourceful lenses for string data
A lens is a bidirectional program. When read from left to right, it denotes an ordinary function that maps inputs to outputs. When read from right to left, it denotes an "upd...
Aaron Bohannon, J. Nathan Foster, Benjamin C. Pier...
BMCBI
2011
12 years 9 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
2007
162views more  BMCBI 2007»
13 years 6 months ago
Three-Dimensional Phylogeny Explorer: Distinguishing paralogs, lateral transfer, and violation of "molecular clock" assumption w
Background: Construction and interpretation of phylogenetic trees has been a major research topic for understanding the evolution of genes. Increases in sequence data and complexi...
Namshin Kim, Christopher Lee
BMCBI
2007
217views more  BMCBI 2007»
13 years 6 months ago
OntologyWidget - a reusable, embeddable widget for easily locating ontology terms
Background: Biomedical ontologies are being widely used to annotate biological data in a computer-accessible, consistent and well-defined manner. However, due to their size and co...
Catherine Beauheim, Farrell Wymore, Michael Nitzbe...