Open-source tool may help extract info from free-text reports

Thursday, December 4 | 10:40 a.m.-10:50 a.m. | SSQ11-02 | Room S403A
In this talk, researchers from the University of British Columbia will explore the potential of the National Center for Biomedical Ontology (NCBO) Annotator software for extracting clinically relevant terms from free-text radiology reports.

While there's an increasing need to generate consumable data from free-text medical imaging reports, there's a lack of clinical research in this area, said presenter Dr. Robyn Cairns.

"The clinical utility of these techniques is poorly understood, and literature that validates automated encoding of clinical free-text is limited," she said. "Currently, there is a lack of standardized research techniques for clinical free-text codification and limited clinical validation of the [NCBO] Annotator Web service."

In testing, the researchers found that the NCBO Annotator -- a flexible and easy-to-use open-source tool -- can identify existing exact-match RadLex concepts in clinical free-text reports.

"However, the performance of the NCBO Annotator for correctly extracting all terms that were considered clinically relevant in pediatric orthopedic medical imaging free-text reports and excluding irrelevant terms is limited," she said.

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