Version 1
: Received: 9 January 2020 / Approved: 11 January 2020 / Online: 11 January 2020 (11:30:10 CET)
How to cite:
Black, A.; MacCannell, D.R.; Sibley, T.R.; Bedford, T. Ten Recommendations for Supporting Open Pathogen Genomic Analysis in Public Health Settings. Preprints2020, 2020010107. https://doi.org/10.20944/preprints202001.0107.v1
Black, A.; MacCannell, D.R.; Sibley, T.R.; Bedford, T. Ten Recommendations for Supporting Open Pathogen Genomic Analysis in Public Health Settings. Preprints 2020, 2020010107. https://doi.org/10.20944/preprints202001.0107.v1
Black, A.; MacCannell, D.R.; Sibley, T.R.; Bedford, T. Ten Recommendations for Supporting Open Pathogen Genomic Analysis in Public Health Settings. Preprints2020, 2020010107. https://doi.org/10.20944/preprints202001.0107.v1
APA Style
Black, A., MacCannell, D.R., Sibley, T.R., & Bedford, T. (2020). Ten Recommendations for Supporting Open Pathogen Genomic Analysis in Public Health Settings. Preprints. https://doi.org/10.20944/preprints202001.0107.v1
Chicago/Turabian Style
Black, A., Thomas R. Sibley and Trevor Bedford. 2020 "Ten Recommendations for Supporting Open Pathogen Genomic Analysis in Public Health Settings" Preprints. https://doi.org/10.20944/preprints202001.0107.v1
Abstract
Public health agencies are increasingly using pathogen whole genome sequencing (WGS) to support surveillance and epidemiologic investigations. As access to WGS has grown, greater amounts of molecular data have helped improve our ability to detect outbreaks, investigate transmission chains, and explore large-scale population dynamics, such as the spread of antibiotic resistance. However, the wide adoption of WGS also poses challenges due to the amount of data generated and the need to transform raw data prior to analysis. This complexity means that public health agencies may need more advanced computational infrastructure, a broader technical workforce, and new approaches to data management and stewardship. As both a guide for how this development could occur, and a place to initiate discussion, we describe ten proposals for developing and supporting an informatics infrastructure for public health.
Keywords
pathogen genomics; public health; bioinformatics
Subject
Public Health and Healthcare, Public Health and Health Services
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
