•  406
    We outline initial work aligning the Basic Formal Ontology (BFO) and the Information Exchange Standard (IES), illustrating how key design patterns and content structures can be connected across the two frameworks. Our analysis highlights points of ontological convergence and divergence, guided by scenarios and supported by formal modeling. The study contributes to methodologies for mapping between upper-level ontologies and standards-based models while providing insights for communities aiming t…Read more
  •  1056
    The Common Core Ontologies
    Frontiers in Artificial Intelligence and Applications. 2024.
    The Common Core Ontologies(CCO) are designed as a mid-level ontology suite that extends the Basic Formal Ontology. In 2017,CUBRC, Inc. made CCO openly available. CCO has since been increasingly adopted by a broad group of users and applications and is proposed as the first standard mid-level ontology. Despite these successes, documentation of the contents and design patterns of the CCO has been comparatively minimal. This paper is a step toward providing enhanced documentation for the mid-level …Read more
  •  577
    Credentials in the Occupation Ontology
    with John Beverley, Robin McGill, Sam Smith, Jie Zheng, Finn Wilson, Matthew Diller, Bill Duncan, Bill Hogan, and Yongqun He
    2024 International Conference on Biomedical Ontologies. 2024.
    The term “credential” encompasses educational certificates, degrees, certifications, and government-issued licenses. An occupational credential is a verification of an individual’s qualification or competence issued by a third party with relevant authority. Job seekers often leverage such credentials as evidence that desired qualifications are satisfied by their holders. Many U.S. education and workforce development organizations have recognized the importance of credentials for employment and t…Read more
  •  96
    The Provenance Ontology (PROV-O) is a World Wide Web Consortium (W3C) recommended ontology used to structure data about provenance across a wide variety of domains. Basic Formal Ontology (BFO) is a top-level ontology ISO/IEC standard used to structure a wide variety of ontologies, such as the OBO Foundry ontologies and the Common Core Ontologies (CCO). To enhance interoperability between these two ontologies, their extensions, and data organized by them, a mapping methodology and set of alignmen…Read more
  •  531
    Middle architecture criteria
    with John Beverley, Mark Jensen, Carter-Beau Benson, and Barry Smith
    In Ítalo Oliveira (ed.), Joint Ontologies Workshops (JOWO), Ceur. pp. 1-12. 2024.
    Mid-level ontologies are used to integrate data across disparate domains using vocabularies more specific than top-level ontologies and more general than domain-level ontologies. There are no clear, defensible criteria for determining whether a given ontology should count as mid-level, because we lack a rigorous characterization of what the middle level of generality is supposed to contain. Attempts to provide such a characterization have failed, we believe, because they have focused on the goal…Read more
  •  821
    Ontology Development Strategies and the Infectious Disease Ontology Ecosystem
    Proceedings of the International Conference on Biomedical Ontologies. 2023.
    After motivating a framework for evaluating top-down, middle-out, middle-in, and bottom-up ontology development strategies, we apply our framework to investigate whether infectious disease ontologies - specifically, the Virus Infectious Disease Ontology (VIDO) and the Coronavirus Infectious Disease Ontology (CIDO) - effectively promote semantic interoperability.