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. 2013 Nov 15;29(22):2955-7.
doi: 10.1093/bioinformatics/btt514. Epub 2013 Sep 5.

OntoQuery: easy-to-use web-based OWL querying

Ilinca Tudose  1 , Janna Hastings, Venkatesh Muthukrishnan, Gareth Owen, Steve Turner, Adriano Dekker, Namrata Kale, Marcus Ennis, Christoph Steinbeck
Affiliations

OntoQuery: easy-to-use web-based OWL querying

Ilinca Tudose et al. Bioinformatics. .

Abstract

Summary: The Web Ontology Language (OWL) provides a sophisticated language for building complex domain ontologies and is widely used in bio-ontologies such as the Gene Ontology. The Protégé-OWL ontology editing tool provides a query facility that allows composition and execution of queries with the human-readable Manchester OWL syntax, with syntax checking and entity label lookup. No equivalent query facility such as the Protégé Description Logics (DL) query yet exists in web form. However, many users interact with bio-ontologies such as chemical entities of biological interest and the Gene Ontology using their online Web sites, within which DL-based querying functionality is not available. To address this gap, we introduce the OntoQuery web-based query utility.

Availability and implementation: The source code for this implementation together with instructions for installation is available at http://github.com/IlincaTudose/OntoQuery. OntoQuery software is fully compatible with all OWL-based ontologies and is available for download (CC-0 license). The ChEBI installation, ChEBI OntoQuery, is available at http://www.ebi.ac.uk/chebi/tools/ontoquery.

Contact: hastings@ebi.ac.uk.

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Figures

Fig. 1.
Fig. 1.
The input box has syntax highlighting and makes suggestions ranking them by relevance and highlighting the matches in the suggestions list. The recent queries indicate the validity of the syntax and the number of results
See this image and copyright information in PMC

References

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