Query enhancement through the practical application of ontology: the IEDB and OBI View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2013-04

AUTHORS

Randi Vita, James A. Overton, Jason A. Greenbaum, Alessandro Sette, OBI consortium, Bjoern Peters

ABSTRACT

Ontologies categorize entities, express relationships between them, and provide standardized definitions. Thus, they can be used to present and enforce the specific relationships between database components. The Immune Epitope Database (IEDB, http://www.iedb.org) utilizes the Ontology for Biomedical Investigations (OBI) and several additional ontologies to represent immune epitope mapping experiments. Here, we describe our experiences utilizing this representation in order to provide enhanced database search functionality. We applied a simple approach to incorporate the benefits of the information captured in a formal ontology directly into the user web interface, resulting in an improved user experience with minimal changes to the database itself. The integration is easy to maintain, provides standardized terms and definitions, and allows for subsumption queries. In addition to these immediate benefits, our long-term goal is to enable true semantic integration of data and knowledge in the biomedical domain. We describe our progress towards that goal and what we perceive as the main obstacles. More... »

PAGES

s6

References to SciGraph publications

Identifiers

URI

http://scigraph.springernature.com/pub.10.1186/2041-1480-4-s1-s6

DOI

http://dx.doi.org/10.1186/2041-1480-4-s1-s6

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1048470672

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/23734660


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