Expressing biomedical ontologies in natural language for expert evaluation

Muhammad Amith; Frank J. Manion; Marcelline R. Harris; Yaoyun Zhang; Hua Xu; Cui Tao

doi:10.3233/978-1-61499-830-3-838

Expressing biomedical ontologies in natural language for expert evaluation

Muhammad Amith, Frank J. Manion, Marcelline R. Harris, Yaoyun Zhang, Hua Xu, Cui Tao

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

We report on a study of our custom Hootation software for the purposes of assessing its ability to produce clear and accurate natural language phrases from axioms embedded in three biomedical ontologies. Using multiple domain experts and three discrete rating scales, we evaluated the tool on clarity of the natural language produced, fidelity of the natural language produced from the ontology to the axiom, and the fidelity of the domain knowledge represented by the axioms. Results show that Hootation provided relatively clear natural language equivalents for a select set of OWL axioms, although the clarity of statements hinges on the accuracy and representation of axioms in the ontology.

Original language	English (US)
Title of host publication	MEDINFO 2017
Subtitle of host publication	Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics
Editors	Zhao Dongsheng, Adi V. Gundlapalli, Jaulent Marie-Christine
Publisher	IOS Press
Pages	838-842
Number of pages	5
ISBN (Electronic)	9781614998297
DOIs	https://doi.org/10.3233/978-1-61499-830-3-838
State	Published - 2017
Externally published	Yes
Event	16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017 - Hangzhou, China Duration: Aug 21 2017 → Aug 25 2017

Publication series

Name	Studies in Health Technology and Informatics
Volume	245
ISSN (Print)	0926-9630
ISSN (Electronic)	1879-8365

Conference

Conference	16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017
Country/Territory	China
City	Hangzhou
Period	8/21/17 → 8/25/17

Keywords

Biomedical ontologies
Knowledge management
Natural language processing

ASJC Scopus subject areas

Biomedical Engineering
Health Informatics
Health Information Management

Access to Document

10.3233/978-1-61499-830-3-838

Cite this

Amith, M., Manion, F. J., Harris, M. R., Zhang, Y., Xu, H., & Tao, C. (2017). Expressing biomedical ontologies in natural language for expert evaluation. In Z. Dongsheng, A. V. Gundlapalli, & J. Marie-Christine (Eds.), MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics (pp. 838-842). (Studies in Health Technology and Informatics; Vol. 245). IOS Press. https://doi.org/10.3233/978-1-61499-830-3-838

Expressing biomedical ontologies in natural language for expert evaluation. / Amith, Muhammad; Manion, Frank J.; Harris, Marcelline R. et al.
MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. ed. / Zhao Dongsheng; Adi V. Gundlapalli; Jaulent Marie-Christine. IOS Press, 2017. p. 838-842 (Studies in Health Technology and Informatics; Vol. 245).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Amith, M, Manion, FJ, Harris, MR, Zhang, Y, Xu, H & Tao, C 2017, Expressing biomedical ontologies in natural language for expert evaluation. in Z Dongsheng, AV Gundlapalli & J Marie-Christine (eds), MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. Studies in Health Technology and Informatics, vol. 245, IOS Press, pp. 838-842, 16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017, Hangzhou, China, 8/21/17. https://doi.org/10.3233/978-1-61499-830-3-838

Amith M, Manion FJ, Harris MR, Zhang Y, Xu H, Tao C. Expressing biomedical ontologies in natural language for expert evaluation. In Dongsheng Z, Gundlapalli AV, Marie-Christine J, editors, MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. IOS Press. 2017. p. 838-842. (Studies in Health Technology and Informatics). doi: 10.3233/978-1-61499-830-3-838

Amith, Muhammad ; Manion, Frank J. ; Harris, Marcelline R. et al. / Expressing biomedical ontologies in natural language for expert evaluation. MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. editor / Zhao Dongsheng ; Adi V. Gundlapalli ; Jaulent Marie-Christine. IOS Press, 2017. pp. 838-842 (Studies in Health Technology and Informatics).

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Expressing biomedical ontologies in natural language for expert evaluation

Abstract

Publication series

Conference

Keywords

ASJC Scopus subject areas

Access to Document

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