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A stochastic SIR (susceptible infective recovered) model is considered for the spread of an epidemic on a network, described initially by an Erdős–Rényi random graph, in which susceptible individuals connected to infectious neighbors may drop or rewire such connections. A novel construction of the model is used to derive a deterministic model for epidemics started with a positive fraction initially infected and prove convergence of the scaled stochastic model to that deterministic model as the population size . For epidemics initiated by a single infective that take off, we prove that for part of the parameter space, in the limit as , the final fraction infected is discontinuous in the infection rate at its threshold , thus not converging to 0 as . The discontinuity is particularly striking when rewiring is necessarily to susceptible individuals in that jumps from 0 to 1 as

The transmission heterogeneity of an epidemic is associated with a complex mixture of host, pathogen and environmental factors. And it may indicate superspreading events to reduce the efficiency of population-level control measures and to sustain the epidemic over a larger scale and a longer duration. Methods have been proposed to identify significant transmission heterogeneity in historic epidemics based on several data sources, such as contact history, viral genomes and spatial information, which may not be available, and more importantly ignore the temporal trend of transmission heterogeneity. Here we attempted to establish a convenient method to estimate real-time heterogeneity over an epidemic. Within the branching process framework, we introduced an instant-individualheterogenous infectiousness model to jointly characterize the variation in infectiousness both between individuals and among different times. With this model, we could simultaneously estimate the transmission heterogeneity and the reproduction number from incidence time series. We validated the model with data of both simulated and real outbreaks. Our estimates of the overall and real-time heterogeneities of the six epidemics were consistent with those presented in the literature. Additionally, our model is robust to the ubiquitous bias of under-reporting and misspecification of serial interval. By analyzing recent data from South Africa, we found evidence that the Omicron might be of more significant transmission heterogeneity than Delta. Our model based on incidence data was proved to be reliable in estimating the real-time transmission heterogeneity.

The real-time analysis of infectious disease surveillance data is essential in obtaining situational awareness about the current dynamics of a major public health event such as the COVID-19 pandemic. This analysis of e.g., time-series of reported cases or fatalities is complicated by reporting delays that lead to under-reporting of the complete number of events for the most recent time points. This can lead to misconceptions by the interpreter, for instance the media or the public, as was the case with the time-series of reported fatalities during the COVID-19 pandemic in Sweden. Nowcasting methods provide real-time estimates of the complete number of events using the incomplete time-series of currently reported events and information about the reporting delays from the past. In this paper we propose a novel Bayesian nowcasting approach applied to COVID-19-related fatalities in Sweden. We incorporate additional information in the form of time-series of number of reported cases and ICU admissions as leading signals. We demonstrate with a retrospective evaluation that the inclusion of ICU admissions as a leading signal improved the nowcasting performance of case fatalities for COVID-19 in Sweden compared to existing methods.

An important task in combating the current Covid-19 pandemic lies in estimating the effect of different preventive measures. Here, we focus on the preventive effect of enforcing the use of face masks. Several publications study this effect, however, often using different measures such as: the relative attack rate in case-control studies, the effect on incidence growth/decline in a specific time frame and the effect on the number of infected in a given time frame. These measures all depend on community-specific features and are hence not easily transferred to other community settings. We argue that a more universal measure is the relative reduction in the reproduction number, which we call the face mask effect, EFM. It is shown how to convert the other measures to EFM. We also apply the methodology to four empirical studies using different effect-measures. When converted to estimates of EFM, all estimates lie between 15 and 40%, suggesting that mandatory face masks reduce the reproduction number by an amount in this range, when compared with no individuals wearing face masks.