Cov19VaxKB: A Web-based Integrative COVID-19 Vaccine Knowledge Base

Philip C Huang; Rohit Goru; Anthony Huffman; Asiyah Yu Lin; Michael F Cooke; Yongqun He

doi:10.1016/j.jvacx.2021.100139

Cov19VaxKB: A Web-based Integrative COVID-19 Vaccine Knowledge Base

Vaccine X. 2021 Dec 28:10:100139. doi: 10.1016/j.jvacx.2021.100139. Online ahead of print.

Authors

Philip C Huang¹, Rohit Goru¹, Anthony Huffman², Asiyah Yu Lin³, Michael F Cooke⁴, Yongqun He^{2

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Affiliations

¹ College of Literature, Science, and the Arts, University of Michigan, Ann Arbor, MI 48109.
² Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI 48109, USA.
³ National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
⁴ School of Information, University of Michigan, Ann Arbor, MI 48109, USA.
⁵ Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
⁶ Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109, USA.

Abstract

The development of SARS-CoV-2 vaccines during the COVID-19 pandemic has prompted the emergence of COVID-19 vaccine data. Timely access to COVID-19 vaccine information is crucial to researchers and public. To support more comprehensive annotation, integration, and analysis of COVID-19 vaccine information, we have developed Cov19VaxKB, a knowledge-focused COVID-19 vaccine database (http://www.violinet.org/cov19vaxkb/). Cov19VaxKB features comprehensive lists of COVID-19 vaccines, vaccine formulations, clinical trials, publications, news articles, and vaccine adverse event case reports. A web-based query interface enables comparison of product information and host responses among various vaccines. The knowledge base also includes a vaccine design tool for predicting vaccine targets and a statistical analysis tool that identifies enriched adverse events for FDA-authorized COVID-19 vaccines based on VAERS case report data. To support data exchange, Cov19VaxKB is synchronized with Vaccine Ontology and the Vaccine Investigation and Online Information Network (VIOLIN) database. The data integration and analytical features of Cov19VaxKB can facilitate vaccine research and development while also serving as a useful reference for the public.

Keywords: AE, adverse event; CDC, Centers for Disease Control and Prevention; COVID-19; COVID-19 vaccine; COVID-19, Coronavirus disease 2019; Cov19VaxKB; FDA, Food and Drug Administration; MERS-CoV, Middle Eastern Respiratory Syndrome; NCBI, National Center for Biotechnology Information; OWL, Web Ontology Language; PMID, PubMed identification number; PRR, Proportional Reporting Ratio; SARS-CoV, Severe Acute Respiratory Syndrome Coronavirus; SARS-CoV-2; SARS-CoV-2, Severe Acute Respiratory Syndrome Coronavirus 2; VAERS; VAERS, Vaccine Adverse Event Reporting System; VIOLIN, Vaccine Investigation and Online Information Network; VO, Vaccine Ontology; WHO, World Health Organization; adverse event; bioinformatics; database; knowledge base; ontology; vaccine.

Grants and funding

UH2 AI132931/AI/NIAID NIH HHS/United States