PMCCPMCCPMCC

Search tips
Search criteria 

Advanced

 
Logo of amiasummtspLink to Publisher's site
 
AMIA Jt Summits Transl Sci Proc. 2012; 2012: 20–29.
Published online 2012 March 19.
PMCID: PMC3392053

Semantator: Annotating Clinical Narratives with Semantic Web Ontologies

Abstract

To facilitate clinical research, clinical data needs to be stored in a machine processable and understandable way. Manual annotating clinical data is time consuming. Automatic approaches (e.g., Natural Language Processing systems) have been adopted to convert such data into structured formats; however, the quality of such automatically extracted data may not always be satisfying. In this paper, we propose Semantator, a semi-automatic tool for document annotation with Semantic Web ontologies. With a loaded free text document and an ontology, Semantator supports the creation/deletion of ontology instances for any document fragment, linking/disconnecting instances with the properties in the ontology, and also enables automatic annotation by connecting to the NCBO annotator and cTAKES. By representing annotations in Semantic Web standards, Semantator supports reasoning based upon the underlying semantics of the owl:disjointWith and owl:equivalentClass predicates. We present discussions based on user experiences of using Semantator.


Articles from AMIA Summits on Translational Science Proceedings are provided here courtesy of American Medical Informatics Association