ArticleBMC medical informatics and decision making2020
Detecting missing IS-A relations in the NCI Thesaurus using an enhanced hybrid approach.
Article in BMC medical informatics and decision making, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- Leveraging logical definitions and lexical features to detect missing IS-A relations in biomedical terminologies.Journal of biomedical semantics · 2024Article
- Identifying Missing IS-A Relations in Orphanet Rare Disease Ontology.Proceedings. IEEE International Conference on Bioinformatics and Biomedicine · 2022Article
- A Comparison of Exhaustive and Non-lattice-based Methods for Auditing Hierarchical Relations in Gene Ontology.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2021Article
- Quality assurance and enrichment of biological and biomedical ontologies and terminologies.BMC medical informatics and decision making · 2020Article
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6 authors.
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Abstract
backgroundThe National Cancer Institute (NCI) Thesaurus provides reference terminology for NCI and other systems. Previously, we proposed a hybrid prototype utilizing lexical features and role definitions of concepts in non-lattice subgraphs to identify missing IS-A relations in the NCI Thesaurus. However, no domain expert evaluation was provided in our previous work. In this paper, we further enhance the hybrid approach by leveraging a novel lexical feature-roots of noun chunks within concept names. Formal evaluation of our enhanced approach is also performed.
methodWe first compute all the non-lattice subgraphs in the NCI Thesaurus. We model each concept using its role definitions, words and roots of noun chunks within its concept name and its ancestor's names. Then we perform subsumption testing for candidate concept pairs in the non-lattice subgraphs to automatically detect potentially missing IS-A relations. Domain experts evaluated the validity of these relations.
resultsWe applied our approach to 19.08d version of the NCI Thesaurus. A total of 55 potentially missing IS-A relations were identified by our approach and reviewed by domain experts. 29 out of 55 were confirmed as valid by domain experts and have been incorporated in the newer versions of the NCI Thesaurus. 7 out of 55 further revealed incorrect existing IS-A relations in the NCI Thesaurus.
conclusionsThe results showed that our hybrid approach by leveraging lexical features and role definitions is effective in identifying potentially missing IS-A relations in the NCI Thesaurus.
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