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Deep Learning-Informed Bayesian Model-Based Analysis to Estimate Superspreading Events in Epidemic Outbreaks

Tasciotti, Arianna
•
Urban, Federico
•
de Dea, Federica
altro
D'Onofrio, Alberto
2024
  • journal article

Periodico
IEEE ACCESS
Abstract
Superspreading events (SSEs) play a critical role in amplifying infectious disease spread, challenging containment efforts. While genomic analysis, contact tracing, and epidemiological data have been instrumental in studying SSEs, these resource-intensive methods are often unsuitable for real-time detection, highlighting the need for timely, efficient SSE identification. We propose a novel framework that leverages only incidence time series data to detect and characterize SSEs in near real-time. Our approach integrates a one-dimensional convolutional neural network (1D CNN) to classify windows of incidence data and a chain-binomial Susceptible-Infected-Recovered (SIR) model that employs a phenomenological approach for transmission modeling. Model parameters are inferred through the Sequential Monte Carlo Approximate Bayesian Computation (SMC-ABC) algorithm. Our results demonstrate the effectiveness of this framework: the 1D CNN achieves a 95% F1 score on synthetic datasets and successfully identifies documented SSEs in real-world outbreaks, including the severe acute respiratory syndrome (SARS) epidemic in Hong Kong and the coronavirus disease 2019 (COVID-19) outbreak in Seoul. The SMC-ABC algorithm provides reliable and interpretable parameter estimates, offering a comprehensive characterization of SSEs, even under moderate noise in data and initial parameter perturbations. This framework enables timely SSE detection and characterization, equipping public health authorities with a powerful tool to facilitate immediate interventions and assess outbreak severity when detailed data is unavailable.
DOI
10.1109/access.2024.3490374
WOS
WOS:001349734900001
Archivio
https://hdl.handle.net/11368/3098644
info:eu-repo/semantics/altIdentifier/scopus/2-s2.0-85208370001
https://ieeexplore.ieee.org/document/10741243
Diritti
open access
license:creative commons
license uri:http://creativecommons.org/licenses/by/4.0/
FVG url
https://arts.units.it/bitstream/11368/3098644/1/Deep_Learning-Informed_Bayesian_Model-Based_Analysis_to_Estimate_Superspreading_Events_in_Epidemic_Outbreaks.pdf
Soggetti
  • Bayesian inference

  • convolutional neural ...

  • stochastic compartmen...

  • superspreading events...

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