Display Settings:

Format

Send to:

Choose Destination
See comment in PubMed Commons below
AMIA Jt Summits Transl Sci Proc. 2012;2012:20-9. Epub 2012 Mar 19.

Semantator: annotating clinical narratives with semantic web ontologies.

Author information

  • 1Division of Biomedical Statistics and Informatics, Mayo Clinic 200 First Street SW, Rochester, MN 55905.

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.

PMID:
22779043
[PubMed]
PMCID:
PMC3392053
Free PMC Article

Images from this publication.See all images (5)Free text

Figure 1:
Figure 2:
Figure 3:
Figure 4:
Figure 5:
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for PubMed Central
    Loading ...
    Write to the Help Desk