Extended Analysis of Topological-Pattern-Based Ontology Enrichment

Document Type

Conference Proceeding

Publication Date

1-21-2019

Abstract

Maintenance of biomedical ontologies is difficult. We have previously developed a topological-pattern-based method to deal with the problem of identifying concepts in a reference ontology that could be of interest for insertion into a target ontology. Assuming that both ontologies are parts of the Unified Medical Language System (UMLS), the method suggests approximate locations where the target ontology could be extended with new concepts from the reference ontology. However, the final decision about each concept has to be made by a human expert. In this paper, we describe the universe of cross-ontology topological patterns in quantitative terms. We then present a theoretical analysis of the number of potential placements of reference concepts in a path in a target ontology, allowing for new cross-ontology synonyms. This provides a rough estimate of what expert resources need to be allocated for the task. One insight in previous work on this topic was the large percentage of cases where importing concepts was impossible, due to a configuration called 'alternative classification In this paper, we confirm this observation. Our target ontology is the National Cancer Institute thesaurus (NCIt). However, the methods can be applied to other pairs of ontologies with hierarchical relationships from the UMLS.

Identifier

85062548764 (Scopus)

ISBN

[9781538654880]

Publication Title

Proceedings 2018 IEEE International Conference on Bioinformatics and Biomedicine Bibm 2018

External Full Text Location

https://doi.org/10.1109/BIBM.2018.8621564

First Page

1641

Last Page

1648

Grant

R01CA190779

Fund Ref

National Institutes of Health

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