Sample size calculations for pathogen variant surveillance in the presence of biological and systematic biases.
Cell Rep Med
; 4(5): 101022, 2023 05 16.
Article
in English
| MEDLINE | ID: covidwho-2306995
ABSTRACT
Tracking the emergence and spread of pathogen variants is an important component of monitoring infectious disease outbreaks. To that end, accurately estimating the number and prevalence of pathogen variants in a population requires carefully designed surveillance programs. However, current approaches to calculating the number of pathogen samples needed for effective surveillance often do not account for the various processes that can bias which infections are detected and which samples are ultimately characterized as a specific variant. In this article, we introduce a framework that accounts for the logistical and epidemiological processes that may bias variant characterization, and we demonstrate how to use this framework (implemented in a publicly available tool) to calculate the number of sequences needed for surveillance. Our framework is designed to be easy to use while also flexible enough to be adapted to various pathogens and surveillance scenarios.
Keywords
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Disease Outbreaks
Type of study:
Observational study
/
Prognostic study
/
Systematic review/Meta Analysis
Topics:
Variants
Language:
English
Journal:
Cell Rep Med
Year:
2023
Document Type:
Article
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