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CORR
2006
Springer
119views Education» more  CORR 2006»
13 years 11 months ago
DepAnn - An Annotation Tool for Dependency Treebanks
DepAnn is an interactive annotation tool for dependency treebanks, providing both graphical and text-based annotation interfaces. The tool is aimed for semi-automatic creation of t...
Tuomo Kakkonen
BMCBI
2006
150views more  BMCBI 2006»
13 years 11 months ago
Cluster analysis of protein array results via similarity of Gene Ontology annotation
Background: With the advent of high-throughput proteomic experiments such as arrays of purified proteins comes the need to analyse sets of proteins as an ensemble, as opposed to t...
Cheryl Wolting, C. Jane McGlade, David Tritchler
BMCBI
2006
128views more  BMCBI 2006»
13 years 11 months ago
New directions in biomedical text annotation: definitions, guidelines and corpus construction
Background: While biomedical text mining is emerging as an important research area, practical results have proven difficult to achieve. We believe that an important first step tow...
W. John Wilbur, Andrey Rzhetsky, Hagit Shatkay
BMCBI
2006
146views more  BMCBI 2006»
13 years 11 months ago
GeneTools - application for functional annotation and statistical hypothesis testing
Background: Modern biology has shifted from "one gene" approaches to methods for genomic-scale analysis like microarray technology, which allow simultaneous measurement ...
Vidar Beisvag, Frode K. R. Jünge, Hallgeir Be...
BMCBI
2006
150views more  BMCBI 2006»
13 years 11 months ago
TreeDyn: towards dynamic graphics and annotations for analyses of trees
Background: Analyses of biomolecules for biodiversity, phylogeny or structure/function studies often use graphical tree representations. Many powerful tree editors are now availab...
François Chevenet, Christine Brun, Anne-Lau...
BMCBI
2006
152views more  BMCBI 2006»
13 years 11 months ago
Amplification of the Gene Ontology annotation of Affymetrix probe sets
Background: The annotations of Affymetrix DNA microarray probe sets with Gene Ontology terms are carefully selected for correctness. This results in very accurate but incomplete a...
Enrique M. Muro, Carolina Perez-Iratxeta, Miguel A...
BMCBI
2007
108views more  BMCBI 2007»
13 years 11 months ago
Integrating sequence and structural biology with DAS
Background: The Distributed Annotation System (DAS) is a network protocol for exchanging biological data. It is frequently used to share annotations of genomes and protein sequenc...
Andreas Prlic, Thomas A. Down, Eugene Kulesha, Rob...
BMCBI
2008
242views more  BMCBI 2008»
13 years 11 months ago
annot8r: GO, EC and KEGG annotation of EST datasets
Background: The expressed sequence tag (EST) methodology is an attractive option for the generation of sequence data for species for which no completely sequenced genome is availa...
Ralf Schmid, Mark L. Blaxter
BMCBI
2007
94views more  BMCBI 2007»
13 years 11 months ago
Lightweight genome viewer: portable software for browsing genomics data in its chromosomal context
Background: Lightweight genome viewer (lwgv) is a web-based tool for visualization of sequence annotations in their chromosomal context. It performs most of the functions of large...
Jeremiah J. Faith, Andrew J. Olson, Timothy S. Gar...
BMCBI
2010
172views more  BMCBI 2010»
13 years 11 months ago
Accessing the SEED genome databases via Web services API: tools for programmers
Background: The SEED integrates many publicly available genome sequences into a single resource. The database contains accurate and up-to-date annotations based on the subsystems ...
Terry Disz, Sajia Akhter, Daniel Cuevas, Robert Ol...