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Jonquet C, et al. (2009) The open biomedical annotator. Summit on Translat Bioinforma 2009:56-60

Title The open biomedical annotator.
Abstract The range of publicly available biomedical data is enormous and is expanding fast. This expansion means that researchers now face a hurdle to extracting the data they need from the large numbers of data that are available. Biomedical researchers have turned to ontologies and terminologies to structure and annotate their data with ontology concepts for better search and retrieval. However, this annotation process cannot be easily automated and often requires expert curators. Plus, there is a lack of easy-to-use systems that facilitate the use of ontologies for annotation. This paper presents the Open Biomedical Annotator (OBA), an ontology-based Web service that annotates public datasets with biomedical ontology concepts based on their textual metadata ( The biomedical community can use the annotator service to tag datasets automatically with ontology terms (from UMLS and NCBO BioPortal ontologies). Such annotations facilitate translational discoveries by integrating annotated data.[1].
Authors Jonquet C, Shah NH, Musen MA
Author Affiliation Stanford Center for Biomedical Informatics Research and the National Center for Biomedical Ontology, Stanford University, Stanford, CA.
Journal Summit on Translat Bioinforma (ISSN:2153-6430)
Publication Date Jan 2009
MeSH Keywords
Link PubMed
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