Junpeng Lao
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Estimating the Changing Infection Rate of COVID-19 Using Bayesian Models of Mobility
Xue Ben
Shawn O'Banion
medRxiv, vol. https://www.medrxiv.org/content/10.1101/2020.08.06.20169664v1.full (2020)
Preview abstract
In order to prepare for and control the continued spread of the COVID-19 pandemic while minimizing its economic impact, the world needs to be able to estimate and predict COVID-19’s spread.
Unfortunately, we cannot directly observe the prevalence or growth rate of COVID-19; these must be inferred using some kind of model.
We propose a hierarchical Bayesian extension to the classic susceptible-exposed-infected-removed (SEIR) compartmental model that adds compartments to account for isolation and death and allows the infection rate to vary as a function of both mobility data collected from mobile phones and a latent time-varying factor that accounts for changes in behavior not captured by mobility data. Since confirmed-case data is unreliable, we infer the model’s parameters conditioned on deaths data. We replace the exponential-waiting-time assumption of classic compartmental models with Erlang distributions, which allows for a more realistic model of the long lag between exposure and death. The mobility data gives us a leading indicator that can quickly detect changes in the pandemic’s local growth rate and forecast changes in death rates weeks ahead of time. This is an analysis of observational data, so any causal interpretations of the model's inferences should be treated as suggestive at best; nonetheless, the model’s inferred relationship between different kinds of trips and the infection rate do suggest some possible hypotheses about what kinds of activities might contribute most to COVID-19’s spread.
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