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OntoCAT - an integrated programming toolkit for common ontology application tasks Nature Precedings
Tomasz Adamusiak; Natalja Kurbatova; Morris A. Swertz; Helen Parkinson.
OntoCAT provides high level abstraction for interacting with ontology resources including local ontology files in standard OWL and OBO formats (via OWL API) and public ontology repositories: EBI Ontology Lookup Service (OLS) and NCBO BioPortal. Each resource is wrapped behind easy to learn Java, Bioconductor/R and REST web service commands enabling reuse and integration of ontology software efforts despite variation in technologies.
Tipo: Manuscript Palavras-chave: Bioinformatics.
Ano: 2011 URL: http://precedings.nature.com/documents/6121/version/1
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Developing an application ontology for annotation of experimental variables – Experimental Factor Ontology Nature Precedings
James Malone; Tomasz Adamusiak; Ele Holloway; Helen Parkinson.
The Experimental Factor Ontology ("www.ebi.ac.uk/efo":http://www.ebi.ac.uk/efo) is an application focused ontology modelling the experimental factors in ArrayExpress. The ontology has been developed to increase the richness of the annotations that are currently made in the ArrayExpress repository, to promote consistent annotation, to facilitate automatic annotation and to integrate external data. The methodology employed in the development of EFO involves construction of mappings to multiple existing domain specific ontologies, such as the Disease Ontology and Cell Type Ontology.
Tipo: Poster Palavras-chave: Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3806/version/1
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OntoCAT - a simpler way to access ontology resources Nature Precedings
Tomasz Adamusiak; Tony Burdett; K Joeri van der Velde; Niran Abeygunawardena; Despoina Antonakaki; Helen Parkinson; Morris Swertz.
OntoCAT is an open source package developed to simplify the task of querying heterogeneous ontology resources. It supports local ontologies in OBO and OWL format as well as public repositories NCBO BioPortal and EBI Ontology Lookup Service (OLS). It is available from "http://ontocat.sourceforge.net":http://ontocat.sourceforge.net
Tipo: Poster Palavras-chave: Bioinformatics.
Ano: 2010 URL: http://precedings.nature.com/documents/4666/version/1
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