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Overcoming the Ontology Enrichment Bottleneck with Quick Term Templates Nature Precedings
Bjoern Peters; Alan Ruttenberg; Jason Greenbaum; Melanie Courtot; Ryan Brinkman; Patricia Whetzel; Daniel Schober; Susanna Assunta Sansone; Richard Scheuerman; Philippe Rocca-Serra.
The developers of the Ontology of Biomedical Investigations (OBI) primarily use Protégé for editing. However, adding many classes with similar patterns of logical definition is time consuming, error prone, and requires the editor to have some expertise in OWL. Therefore, the process is poorly suited for a large number of domain experts who have limited experience Protégé and ontology development. We have developed a procedure to ease this task and allow such domain experts to add terms to the ontology in a way that both effectively includes complex logical definitions yet requires minimal manual intervention by OBI developers. The procedure is based on editing a Quick Term Template in a spreadsheet format which is...
Tipo: Presentation Palavras-chave: Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3970/version/1
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MIREOT: the Minimum Information to Reference an External Ontology Term Nature Precedings
Melanie Courtot; Frank Gibson; Allyson L. Lister; James Malone; Daniel Schober; Ryan R. Brinkman; Alan Ruttenberg.
While the Web Ontology Language (OWL) provides a mechanism to import ontologies, this mechanism is not always suitable. First, given the current state of editing tools and the issues they have working with large ontologies, direct OWL imports have sometimes proven impractical for day-to-day development. Second, ontologies chosen for integration may be under active development and not aligned with the chosen design principles. Importing heterogeneous ontologies in their entirety may lead to inconsistencies or unintended inferences. In this paper we propose a set of guidelines for importing required terms from an external resource into a target ontology. We describe the guidelines, their implementation, present some examples of application, and outline...
Tipo: Manuscript Palavras-chave: Biotechnology; Bioinformatics; Data Standards.
Ano: 2009 URL: http://precedings.nature.com/documents/3574/version/1
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