Beverley John, Babcock Shane, Benson Carter, De Colle Giacomo, Cohen Sydney, Diehl Alexander D, Challa Ram A N R, Mavrovich Rachel A, Billig Joshua, Huffman Anthony, He Yongqun
National Center for Ontological Research, Buffalo, USA.
University at Buffalo, State University of New York, Buffalo, USA.
J Biomed Semantics. 2025 Jul 9;16(1):12. doi: 10.1186/s13326-025-00333-6.
Infectious 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.
The "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).
IDO is introduced before reporting on the scopes, major classes and relations, applications and extensions of IDO to VIDO, BIDO, MIDO, and PIDO.
The 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.
传染病仍然是一项严峻的全球卫生挑战，标准化本体的整合在管理相关数据方面发挥着至关重要的作用。传染病本体（IDO）及其扩展，如冠状病毒传染病本体（CIDO），对于组织和传播与传染病相关的信息至关重要。2019年冠状病毒病（COVID-19）大流行凸显了更新IDO及其特定病毒扩展的必要性。此外，还需要更新针对细菌、真菌和寄生虫传染病的IDO扩展。
采用“中心辐射”方法生成IDO的病原体特异性扩展：病毒传染病本体（VIDO）、细菌传染病本体（BIDO）、真菌病传染病本体（MIDO）和寄生虫传染病本体（PIDO）。
在报告IDO到VIDO、BIDO、MIDO和PIDO的范围、主要类别和关系、应用及扩展之前，先介绍IDO。
病原体特异性参考本体的创建推进了IDO生态系统内传染病本体的模块化和可重用性。未来的工作将集中于进一步完善这些本体、创建新的扩展并基于它们开发应用本体，这与当前为标准化生物和生物医学术语以改善数据共享、质量及分析所做的努力相一致。
