论文标题

SE(A)IR Covid-19扩散模型参数的贝叶斯动力估计

Bayesian dynamical estimation of the parameters of an SE(A)IR COVID-19 spread model

论文作者

Calvetti, Daniela, Hoover, Alexander, Rose, Johnie, Somersalo, Erkki

论文摘要

在本文中,我们考虑了Covid-19感染传播的动态流行病学模型。从经典的SEIR模型开始,对模型进行了修改,以便更好地描述潜在病原体及其感染模式的特征。该模型与与有记录的感染者接触无关的大量继发感染一致,其中包括一系列无症状或寡症状传染病患者的队列,而在新的每日感染计数的数据中未涉及。贝叶斯粒子过滤算法用于动态更新相关的队列,并同时估计传输速率,因为有关新感染和疾病相关死亡的新数据可用。该模型的基本假设是,由于病原体的突变或对缓解和遏制措施的响应,感染率在流行期间动态变化。顺序贝叶斯框架自然提供了模型参数估计中的不确定性的量化,包括繁殖数和不同同类群体的大小。此外,我们引入了无量纲的数量,这是无症状和有症状队列大小之间的平衡比,并提出了一个简单的公式来估计数量。该比率自然导致了另一个无量纲的数量,该数量扮演了基本繁殖编号$ r_0 $的作用。当我们将模型和粒子滤清器算法应用于来自俄亥俄州东北部和密歇根州东南部几个县的COVID-19感染数据时,我们发现提出的繁殖数量$ R_0 $在两个州内都具有一致的动态行为,因此证明是缓解措施成功的可靠摘要。

In this article, we consider a dynamic epidemiology model for the spread of the COVID-19 infection. Starting from the classical SEIR model, the model is modified so as to better describe characteristic features of the underlying pathogen and its infectious modes. In line with the large number of secondary infections not related to contact with documented infectious individuals, the model includes a cohort of asymptomatic or oligosymptomatic infectious individuals, not accounted for in the data of new daily counts of infections. A Bayesian particle filtering algorithm is used to update dynamically the relevant cohort and simultaneously estimate the transmission rate as the new data on the number of new infections and disease related death become available. The underlying assumption of the model is that the infectivity rate is dynamically changing during the epidemics, either because of a mutation of the pathogen or in response to mitigation and containment measures. The sequential Bayesian framework naturally provides a quantification of the uncertainty in the estimate of the model parameters, including the reproduction number, and of the size of the different cohorts. Moreover, we introduce a dimensionless quantity, which is the equilibrium ratio between asymptomatic and symptomatic cohort sizes, and propose a simple formula to estimate the quantity. This ratio leads naturally to another dimensionless quantity that plays the role of the basic reproduction number $R_0$ of the model. When we apply the model and particle filter algorithm to COVID-19 infection data from several counties in Northeastern Ohio and Southeastern Michigan we found the proposed reproduction number $R_0$ to have a consistent dynamic behavior within both states, thus proving to be a reliable summary of the success of the mitigation measures.

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