Sequential Bayesian analysis of time-varying transmission in stratified epidemic renewal models
Abstract
Understanding how transmission varies across age groups is important for epidemic surveillance and targeted intervention, but estimating age-specific transmission in near real time is challenging when infections are only partially observed, observations are delayed, and transmission varies across age groups. We develop a Bayesian age-stratified renewal model that jointly estimates latent infections, time-varying age-specific susceptibility, and age-specific contributions to transmission within an empirically specified contact structure. To enable sequential inference under these processes, we use a block particle filtering approach embedded within a sequential Monte Carlo squared framework, with fixed-lag smoothing to account for temporal dependence and delayed observations. From the inferred transmission process, we derive a next-generation matrix, effective reproduction number, and reproduction contributions. Applied to age-stratified COVID-19 surveillance data from Ireland during the Omicron dominant period, the framework reveals heterogeneity in susceptibility and transmission, with older adults exhibiting higher susceptibility, while younger and working-age groups make larger contributions to transmission because of their higher contact rates. These results demonstrate how statistical inference can provide age-specific transmission estimates to support targeted epidemic monitoring and intervention.
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BibTeX
@misc{temfack2026sequential,
title = {{Sequential Bayesian analysis of time-varying transmission in stratified epidemic renewal models}},
author = {Dhorasso Temfack and Jason Wyse},
howpublished = {arXiv},
year = {2026},
month = nov,
doi = {10.48550/arxiv.2611.03663},
eprint = {2611.03663},
archivePrefix = {arXiv},
url = {https://arxiv.org/abs/2611.03663},
note = {CC BY 4.0},
}
RIS
TY - UNPB
TI - Sequential Bayesian analysis of time-varying transmission in stratified epidemic renewal models
AU - Dhorasso Temfack
AU - Jason Wyse
PY - 2026
DA - 2026/11/01
PB - arXiv
DO - 10.48550/arxiv.2611.03663
UR - https://arxiv.org/abs/2611.03663
AB - Understanding how transmission varies across age groups is important for epidemic surveillance and targeted intervention, but estimating age-specific transmission in near real time is challenging when infections are only partially observed, observations are delayed, and transmission varies across age groups. We develop a Bayesian age-stratified renewal model that jointly estimates latent infections, time-varying age-specific susceptibility, and age-specific contributions to transmission within an empirically specified contact structure. To enable sequential inference under these processes, we use a block particle filtering approach embedded within a sequential Monte Carlo squared framework, with fixed-lag smoothing to account for temporal dependence and delayed observations. From the inferred transmission process, we derive a next-generation matrix, effective reproduction number, and reproduction contributions. Applied to age-stratified COVID-19 surveillance data from Ireland during the Omicron dominant period, the framework reveals heterogeneity in susceptibility and transmission, with older adults exhibiting higher susceptibility, while younger and working-age groups make larger contributions to transmission because of their higher contact rates. These results demonstrate how statistical inference can provide age-specific transmission estimates to support targeted epidemic monitoring and intervention.
ER -