Ontology-based time information representation of vaccine adverse events in VAERS for temporal analysis

Cui Tao, Yongqun He, Hannah Yang, Gregory A. Poland, Christopher G. Chute

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

Background: The U.S. FDA/CDC Vaccine Adverse Event Reporting System (VAERS) provides a valuable data source for post-vaccination adverse event analyses. The structured data in the system has been widely used, but the information in the write-up narratives is rarely included in these kinds of analyses. In fact, the unstructured nature of the narratives makes the data embedded in them difficult to be used for any further studies. Results: We developed an ontology-based approach to represent the data in the narratives in a "machine-understandable" way, so that it can be easily queried and further analyzed. Our focus is the time aspect in the data for time trending analysis. The Time Event Ontology (TEO), Ontology of Adverse Events (OAE), and Vaccine Ontology (VO) are leveraged for the semantic representation of this purpose. A VAERS case report is presented as a use case for the ontological representations. The advantages of using our ontology-based Semantic web representation and data analysis are emphasized. Conclusions: We believe that representing both the structured data and the data from write-up narratives in an integrated, unified, and "machine-understandable" way can improve research for vaccine safety analyses, causality assessments, and retrospective studies.

Original languageEnglish (US)
Article number13
JournalJournal of Biomedical Semantics
Volume3
Issue number1
DOIs
StatePublished - Dec 20 2012

Fingerprint

Vaccines
Ontology
Semantics
Information Storage and Retrieval
Centers for Disease Control and Prevention (U.S.)
Information Systems
Causality
Semantic Web
Vaccination
Retrospective Studies
Safety
Research

ASJC Scopus subject areas

  • Information Systems
  • Computer Science Applications
  • Computer Networks and Communications
  • Health Informatics

Cite this

Ontology-based time information representation of vaccine adverse events in VAERS for temporal analysis. / Tao, Cui; He, Yongqun; Yang, Hannah; Poland, Gregory A.; Chute, Christopher G.

In: Journal of Biomedical Semantics, Vol. 3, No. 1, 13, 20.12.2012.

Research output: Contribution to journalArticle

Tao, Cui ; He, Yongqun ; Yang, Hannah ; Poland, Gregory A. ; Chute, Christopher G. / Ontology-based time information representation of vaccine adverse events in VAERS for temporal analysis. In: Journal of Biomedical Semantics. 2012 ; Vol. 3, No. 1.
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