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Combining machine learning and dynamic system techniques to early detection of respiratory outbreaks in routinely collected primary healthcare records

Authors: Dérick G. F. Borges; Eluã R. Coutinho; Thiago Cerqueira-Silva; Malú Grave; Adriano O. Vasconcelos; Luiz Landau; Alvaro L. G. A. Coutinho; +5 Authors

Combining machine learning and dynamic system techniques to early detection of respiratory outbreaks in routinely collected primary healthcare records

Abstract

Methods that enable early outbreak detection represent powerful tools in epidemiological surveillance, allowing adequate planning and timely response to disease surges. Syndromic surveillance data collected from primary healthcare encounters can be used as a proxy for the incidence of confirmed cases of respiratory diseases. Deviations from historical trends in encounter numbers can provide valuable insights into emerging diseases with the potential to trigger widespread outbreaks.Unsupervised machine learning methods and dynamical systems concepts were combined into the Mixed Model of Artificial Intelligence and Next-Generation (MMAING) ensemble, which aims to detect early signs of outbreaks based on primary healthcare encounters. We used data from 27 Brazilian health regions, which cover 41% of the country's territory, from 2017-2023 to identify anomalous increases in primary healthcare encounters that could be associated with an epidemic onset. Our validation approach comprised (i) a comparative analysis across Brazilian capitals; (ii) an analysis of warning signs for the COVID-19 period; and (iii) a comparison with related surveillance methods (namely EARS C1, C2, C3) based on real and synthetic labeled data.The MMAING ensemble demonstrated its effectiveness in early outbreak detection using both actual and synthetic data, outperforming other surveillance methods. It successfully detected early warning signals in synthetic data, achieving a probability of detection of 86%, a positive predictive value of 85%, and an average reliability of 79%. When compared to EARS C1, C2, and C3, it exhibited superior performance based on receiver operating characteristic (ROC) curve results on synthetic data. When evaluated on real-world data, MMAING performed on par with EARS C2. Notably, the MMAING ensemble accurately predicted the onset of the four waves of the COVID-19 period in Brazil, further validating its effectiveness in real-world scenarios.Identifying trends in time series data related to primary healthcare encounters indicated the possibility of developing a reliable method for the early detection of outbreaks. MMAING demonstrated consistent identification capabilities across various scenarios, outperforming established reference methods.

Keywords

Medicine (General), Syndromic surveillance, Primary Health Care, Reproduction number, SARS-CoV-2, Research, reproduction number, COVID-19, Disease Outbreaks, Machine Learning, machine learning, R5-920, Early Diagnosis, primary healthcare data, Outbreak detection, Machine learning, outbreak detection, Humans, syndromic surveillance, Primary healthcare data, Brazil

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    influence
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
2
Top 10%
Average
Average
Green
gold