[HTML][HTML] Coordinating virus research: The Virus Infectious Disease Ontology

J Beverley, S Babcock, G Carvalho, LG Cowell… - Plos one, 2024 - journals.plos.org
The COVID-19 pandemic prompted immense work on the investigation of the SARS-CoV-2
virus. Rapid, accurate, and consistent interpretation of generated data is thereby of …

[HTML][HTML] A new framework for host-pathogen interaction research

H Yu, L Li, A Huffman, J Beverley, J Hur… - Frontiers in …, 2022 - frontiersin.org
COVID-19 often manifests with different outcomes in different patients, highlighting the
complexity of the host-pathogen interactions involved in manifestations of the disease at the …

[HTML][HTML] Ontology-based taxonomical analysis of experimentally verified natural and laboratory human coronavirus hosts and its implication for COVID-19 virus …

Y Wang, M Ye, F Zhang, ZT Freeman, H Yu, X Ye, Y He - Plos one, 2024 - journals.plos.org
To fully understand COVID-19, it is critical to study all possible hosts of SARS-CoV-2 (the
pathogen of COVID-19). In this work, we collected, annotated, and performed ontology …

[HTML][HTML] SARSMutOnto: an ontology for SARS-CoV-2 lineages and mutations

J Bakkas, M Hanine, A Chekry, S Gounane… - Viruses, 2023 - mdpi.com
Mutations allow viruses to continuously evolve by changing their genetic code to adapt to
the hosts they infect. It is an adaptive and evolutionary mechanism that helps viruses acquire …

[HTML][HTML] Big knowledge visualization of the COVID-19 CIDO ontology evolution

L Zheng, Y Perl, Y He - BMC Medical Informatics and Decision Making, 2023 - Springer
Background The extensive international research for medications and vaccines for the
devastating COVID-19 pandemic requires a standard reference ontology. Among the current …

[HTML][HTML] Ontological representation, modeling, and analysis of parasite vaccines

A Huffman, X Zhang, M Lanka, J Zheng… - Journal of Biomedical …, 2024 - Springer
Background Pathogenic parasites are responsible for multiple diseases, such as malaria
and Chagas disease, in humans and livestock. Traditionally, pathogenic parasites have …

COVoc and COVTriage: novel resources to support literature triage

D Caucheteur, Z May Pendlington, P Roncaglia… - …, 2023 - academic.oup.com
Motivation Since early 2020, the coronavirus disease 2019 (COVID-19) pandemic has
confronted the biomedical community with an unprecedented challenge. The rapid spread of …

Middle Architecture Criteria

J Beverley, G De Colle, M Jensen, C Benson… - arXiv preprint arXiv …, 2024 - arxiv.org
Mid-level ontologies are used to integrate terminologies and data across disparate domains.
There are, however, no clear, defensible criteria for determining whether a given ontology …

Taxonomical and ontological analysis of verified natural and laboratory human coronavirus hosts

Y Wang, M Ye, F Zhang, ZT Freeman, H Yu, X Ye, Y He - bioRxiv, 2023 - biorxiv.org
To fully understand COVID-19, it is critical to identify and analyze all the possible hosts of
SARS-CoV-2 (the pathogen of COVID-19) and compare them with the hosts of other human …

Applying AI and Ontologies to the Covid Pandemic

WV Siricharoen - International Conference on Nature of Computation …, 2023 - Springer
Abstract The application of Artificial Intelligence (AI) and ontologies to the COVID-19
pandemic has been an active area of research and development. AI techniques such as …