Aggregating UMLS semantic types for reducing conceptual complexity
- PMID: 11604736
- PMCID: PMC4300099
Aggregating UMLS semantic types for reducing conceptual complexity
Abstract
The conceptual complexity of a domain can make it difficult for users of information systems to comprehend and interact with the knowledge embedded in those systems. The Unified Medical Language System (UMLS) currently integrates over 730,000 biomedical concepts from more than fifty biomedical vocabularies. The UMLS semantic network reduces the complexity of this construct by grouping concepts according to the semantic types that have been assigned to them. For certain purposes, however, an even smaller and coarser-grained set of semantic type groupings may be desirable. In this paper, we discuss our approach to creating such a set. We present six basic principles, and then apply those principles in aggregating the existing 134 semantic types into a set of 15 groupings. We present some of the difficulties we encountered and the consequences of the decisions we have made. We discuss some possible uses of the semantic groups, and we conclude with implications for future work.
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References
-
- Wickens CD, Gordon SE, Liu Y. An Introduction to Human Factors Engineering. New York: Longman; 1998.
-
- McCray AT. High-Performance Medical Libraries: Advances in Information Management for the Virtual Era. Westport: Meckler Publishing; 1993. Representing biomedical knowledge in the UMLS Semantic Network; pp. 45–55.
-
- Chandrasekaran R, Josephson JR, Benjamins VR. What are ontologies, and why do we need them? IEEE Intelligent Systems. 1999:20–26.
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