Assessing Resolvability and Consistency in OBO Foundry Ontologies: Pilot Study.

Journal: Studies in health technology and informatics
Published Date: Nov 18, 2021

Abstract

Ontologies listed in the OBO Foundry are often regarded as reliable choices to be reused but ontology interoperability of them remains unknown. This study evaluated the resolvability of URIs and consistency of axioms in the OBO Foundry library, BFO ontology, and CIDO ontology. All had nonresolvable URIs, but the OBO library and the CIDO had additional interoperability issues regarding the use of incorrect prefixes, mixing up with ontologies, and inconsistency in the use of property. These detected issues reflected the real-world common problems that were not significant from human beings' point of view but hindered the machine-processability of ontologies. The assessment performed in this study was automated and enables scale-up against more metrics over more ontologies, which remains future work.

Authors

  • Shuxin Zhang
    Department of Mechanical Engineering, Virginia Tech, 1075 Life Sciences Circle, Blacksburg, VA, 0917, United States of America.
  • Nirupama Benis
    Department of Medical Informatics, Amsterdam University Medical Center, Amsterdam, The Netherlands.
  • Ronald Cornet
    Department of Medical Informatics, Academic Medical Center, University of Amsterdam, Meibergdreef 15, 1105 AZ Amsterdam, The Netherlands; Department of Biomedical Engineering, Linköping University, SE-581 83 Linköping, Sweden.

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