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Review
. 2024 Jul 3;15(7):876.
doi: 10.3390/genes15070876.

SARS-CoV-2 Genomic Epidemiology Dashboards: A Review of Functionality and Technological Frameworks for the Public Health Response

Nikita Sitharam  1 , Houriiyah Tegally  1 , Danilo de Castro Silva  1   2 , Cheryl Baxter  1   3 , Tulio de Oliveira  1   3   4   5 , Joicymara S Xavier  1   6   7
Affiliations
Review

SARS-CoV-2 Genomic Epidemiology Dashboards: A Review of Functionality and Technological Frameworks for the Public Health Response

Nikita Sitharam et al. Genes (Basel). .

Abstract

During the coronavirus disease 2019 (COVID-19) pandemic, the number and types of dashboards produced increased to convey complex information using digestible visualizations. The pandemic saw a notable increase in genomic surveillance data, which genomic epidemiology dashboards presented in an easily interpretable manner. These dashboards have the potential to increase the transparency between the scientists producing pathogen genomic data and policymakers, public health stakeholders, and the public. This scoping review discusses the data presented, functional and visual features, and the computational architecture of six publicly available SARS-CoV-2 genomic epidemiology dashboards. We found three main types of genomic epidemiology dashboards: phylogenetic, genomic surveillance, and mutational. We found that data were sourced from different databases, such as GISAID, GenBank, and specific country databases, and these dashboards were produced for specific geographic locations. The key performance indicators and visualization used were specific to the type of genomic epidemiology dashboard. The computational architecture of the dashboards was created according to the needs of the end user. The genomic surveillance of pathogens is set to become a more common tool used to track ongoing and future outbreaks, and genomic epidemiology dashboards are powerful and adaptable resources that can be used in the public health response.

Keywords: SARS-CoV-2; computational dashboards; epidemiology; genomics; public health informatics.

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Conflict of interest statement

The authors declare no conflicts of interest. The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript; or in the decision to publish the results.

Figures

Figure 1
Figure 1
Process involved in the design and production of a genomic epidemiology dashboard. 1—Data collection, 2—processing of the source data, 3—analyzing and visualizing the data, 4—computational architecture development of the front- and back-end, and 5—different categories of genomic epidemiology dashboards.
Figure 2
Figure 2
Key performance indicators (KPIs) of the different types of genomic epidemiology dashboards.
See this image and copyright information in PMC

References

    1. Holmes B.J. Communicating about emerging infectious disease: The importance of research. Health Risk Soc. 2008;10:349–360. doi: 10.1080/13698570802166431. - DOI
    1. M’ikanatha N.M., Lynfield R., Julian K.G., Van Beneden C.A., Valk H.d. Infectious Disease Surveillance. John Wiley & Sons, Ltd.; Hoboken, NJ, USA: 2013. Infectious disease surveillance: A cornerstone for prevention and control; pp. 1–20.
    1. Friede A., Blum H.L., McDonald M. Public health informatics: How information-age technology can strengthen public health. Annu. Rev. Public Health. 1995;16:239–252. doi: 10.1146/annurev.pu.16.050195.001323. - DOI - PubMed
    1. Thacker S.B., Stroup D.F. Infectious Disease Surveillance. John Wiley & Sons, Ltd.; Hoboken, NJ, USA: 2013. Origins and progress in surveillance systems; pp. 21–31.
    1. Walker D.M., Yeager V.A., Lawrence J., McAlearney A.S. Identifying Opportunities to Strengthen the Public Health Informatics Infrastructure: Exploring Hospitals’ Challenges with Data Exchange. Milbank Q. 2021;99:393–425. doi: 10.1111/1468-0009.12511. - DOI - PMC - PubMed

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