ArticleJournal of biomedical semantics2025
A fourfold pathogen reference ontology suite.
Article in Journal of biomedical semantics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
backgroundInfectious diseases remain a critical global health challenge, and the integration of standardized ontologies plays a vital role in managing related data. The Infectious Disease Ontology (IDO) and its extensions, such as the Coronavirus Infectious Disease Ontology (CIDO), are essential for organizing and disseminating information related to infectious diseases. The COVID-19 pandemic highlighted the need for updating IDO and its virus-specific extensions. There is an additional need to update IDO extensions specific to bacteria, fungus, and parasite infectious diseases.
methodsThe "hub-and-spoke" methodology is adopted to generate pathogen-specific extensions of IDO: Virus Infectious Disease Ontology (VIDO), Bacteria Infectious Disease Ontology (BIDO), Mycosis Infectious Disease Ontology (MIDO), and Parasite Infectious Disease Ontology (PIDO).
resultsIDO is introduced before reporting on the scopes, major classes and relations, applications and extensions of IDO to VIDO, BIDO, MIDO, and PIDO.
conclusionsThe creation of pathogen-specific reference ontologies advances modularization and reusability of infectious disease ontologies within the IDO ecosystem. Future work will focus on further refining these ontologies, creating new extensions, and developing application ontologies based on them, in line with ongoing efforts to standardize biological and biomedical terminologies for improved data sharing, quality, and analysis.
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