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BMCBI
2007
134views more  BMCBI 2007»
15 years 3 months ago
Benchmarking natural-language parsers for biological applications using dependency graphs
Background: Interest is growing in the application of syntactic parsers to natural language processing problems in biology, but assessing their performance is difficult because di...
Andrew B. Clegg, Adrian J. Shepherd
109
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BMCBI
2007
147views more  BMCBI 2007»
15 years 3 months ago
MaxAlign: maximizing usable data in an alignment
Background: The presence of gaps in an alignment of nucleotide or protein sequences is often an inconvenience for bioinformatical studies. In phylogenetic and other analyses, for ...
Rodrigo Gouveia-Oliveira, Peter Wad Sackett, Ander...
BMCBI
2007
163views more  BMCBI 2007»
15 years 3 months ago
Strainer: software for analysis of population variation in community genomic datasets
Background: Metagenomic analyses of microbial communities that are comprehensive enough to provide multiple samples of most loci in the genomes of the dominant organism types will...
John M. Eppley, Gene W. Tyson, Wayne M. Getz, Jill...
BMCBI
2007
154views more  BMCBI 2007»
15 years 3 months ago
Bounds on the distribution of the number of gaps when circles and lines are covered by fragments: Theory and practical applicati
Background: The question of how a circle or line segment becomes covered when random arcs are marked off has arisen repeatedly in bioinformatics. The number of uncovered gaps is o...
John Moriarty, Julian R. Marchesi, Anthony Metcalf...
BMCBI
2010
240views more  BMCBI 2010»
15 years 3 months ago
CircuitsDB: a database of mixed microRNA/transcription factor feed-forward regulatory circuits in human and mouse
Background: Transcription Factors (TFs) and microRNAs (miRNAs) are key players for gene expression regulation in higher eukaryotes. In the last years, a large amount of bioinforma...
Olivier Friard, Angela Re, Daniela Taverna, Michel...