Biomedical ontologies in action: role in knowledge management, data integration and decision support

O Bodenreider - Yearbook of medical informatics, 2008 - thieme-connect.com
Objectives To provide typical examples of biomedical ontologies in action, emphasizing the
role played by biomedical ontologies in knowledge management, data integration and …

Exploring large document repositories with RDF technology: The DOPE project

H Stuckenschmidt, F Van Harmelen… - IEEE Intelligent …, 2004 - ieeexplore.ieee.org
This thesaurus-based search system uses automatic indexing, RDF-based querying, and
concept-based visualization of results to support exploration of large online document …

Bionavigation: Selecting optimum paths through biological resources to evaluate ontological navigational queries

Z Lacroix, K Parekh, ME Vidal, M Cardenas… - … Workshop on Data …, 2005 - Springer
In this paper we present the BioNavigation system that allows scientists to express their
queries using an ontology representing the conceptual level of scientific classes and labeled …

OILing the way to machine understandable bioinformatics resources

R Stevens, C Goble, I Horrocks… - IEEE Transactions on …, 2002 - ieeexplore.ieee.org
The complex questions and analyses posed by biologists, as well as the diverse data
resources they develop, require the fusion of evidence from different, independently …

BioOntoVerb: A top level ontology based framework to populate biomedical ontologies from texts

JM Ruiz-Martínez, R Valencia-García… - Knowledge-Based …, 2012 - Elsevier
The Semantic Web can be conceived as an extension of the current Web where information
is given well-defined meaning. In this scenario ontologies are crucial since they provide …

An open annotation ontology for science on web 3.0

P Ciccarese, M Ocana, LJ Garcia Castro, S Das… - Journal of biomedical …, 2011 - Springer
Background There is currently a gap between the rich and expressive collection of
published biomedical ontologies, and the natural language expression of biomedical papers …

Querying multiple bioinformatics information sources: Can semantic web research help?

D Buttler, M Coleman, T Critchlow, R Fileto… - ACM SIGMOD …, 2002 - dl.acm.org
Advances in Semantic Web and Ontologies have pushed the role of semantics to a new
frontier: Semantic Composition of Web Services. A good example of such compositions is …

OLSVis: an animated, interactive visual browser for bio-ontologies

S Vercruysse, A Venkatesan, M Kuiper - BMC bioinformatics, 2012 - Springer
Background More than one million terms from biomedical ontologies and controlled
vocabularies are available through the Ontology Lookup Service (OLS). Although OLS …

Falcons concept search: A practical search engine for web ontologies

Y Qu, G Cheng - IEEE Transactions on Systems, Man, and …, 2011 - ieeexplore.ieee.org
Web ontologies provide shared concepts for describing domain entities and thus enable
semantic interoperability between applications. To facilitate concept sharing and ontology …

Gopubmed: Exploring pubmed with ontological background knowledge

H Dietze, D Alexopoulou, MR Alvers… - … for Systems Biology, 2009 - Springer
With the ever increasing size of scientific literature, finding relevant documents and
answering questions has become even more of a challenge. Recently, ontologies …