Epidemics on complex networks is a widely investigated topic in the last few years, mainly due to the last pandemic events. Usually, real contact networks are dynamic, hence much effort has been invested in studying epidemics on evolving networks. Here we propose and study a model for evolving networks based on varying degrees, where at each time step a node might get, with probability $r$, a new degree and new neighbors according to a given degree distribution, instead of its former neighbors. We find analytically, using the generating functions framework, the epidemic threshold and the probability for a macroscopic spread of disease depending on the rewiring rate $r$. Our analytical results are supported by numerical simulations. We find surprisingly that the impact of the rewiring rate $r$ has qualitative different trends for networks having different degree distributions. That is, in some structures, such as random regular networks the dynamics enhances the epidemic spreading while in others such as scale free the dynamics reduces the spreading. In addition, for scale-free networks, we reveal that fast dynamics of the network, $r=1$, changes the epidemic threshold to nonzero rather than zero found for $r<1$, which is similar to the known case of $r=0$, i.e., a static network. Finally, we find the epidemic threshold also for a general distribution of the recovery time.
We investigate the effects of modular and temporal connectivity patterns on epidemic spreading. To this end, we introduce and analytically characterise a model of time-varying networks with tunable modularity. Within this framework, we study the epidemic size of Susceptible-Infected-Recovered, SIR, models and the epidemic threshold of Susceptible-Infected-Susceptible, SIS, models. Interestingly, we find that while the presence of tightly connected clusters inhibit SIR processes, it speeds up SIS diseases. In this case, we observe that heterogeneous temporal connectivity patterns and modular st…
Current understanding of the critical outbreak condition on temporal networks relies on approximations (time scale separation, discretization) that may bias the results. We propose a theoretical framework to compute the epidemic threshold in continuous time through the infection propagator approach. We introduce the {\em weak commutation} condition allowing the interpretation of annealed networks, activity-driven networks, and time scale separation into one formalism. Our work provides a coherent connection between discrete and continuous time representations applicable to realistic scenarios.
Changs in individual behavior often entangles with the dynamic interaction of individuals, which complicates the epidemic process and brings great challenges for the understanding and control of the epidemic. In this work, we consider three kinds of typical behavioral changes in epidemic process that is, self-quarantine of infected individuals, self-protection of susceptible individuals, and social distancing between them. We connect the behavioral changes with individual's social attributes by the activity-driven network with attractiveness. A mean-field theory is established to derive an ana…
Epidemic Transmission Modelling on the Birth-death Evolving Network with Indirect Contacts
College of Artificial Intelligence, Southwest University（西南大学人工智能学院）；School of Mathematical Sciences, Queen Mary University of London（伦敦大学玛丽女王学院数学科学学院）；Potsdam Institute for Climate Impact Research（波茨坦气候影响研究所）；Institute of Physics, Humboldt University of Berlin（柏林洪堡大学物理研究所）
A model for epidemic spreading on rewiring networks is introduced and analyzed for the case of scale free steady state networks. It is found that contrary to what one would have naively expected, the rewiring process typically tends to suppress epidemic spreading. In particular it is found that as in static networks, rewiring networks with degree distribution exponent $γ>3$ exhibit a threshold in the infection rate below which epidemics die out in the steady state. However the threshold is higher in the rewiring case. For $2<γ\leq 3$ no such threshold exists, but for small infection rate the s…
Most studies of disease spreading consider the underlying social network as obtained without the contagion, though epidemic influences people's willingness to contact others: A "friendly" contact may be turned to "unfriendly" to avoid infection. We study the susceptible-infected disease-spreading model on signed networks, in which each edge is associated with a positive or negative sign representing the friendly or unfriendly relation between its end nodes. In a signed network, according to Heider's theory, edge signs evolve such that finally a state of structural balance is achieved, correspo…
The exploration of epidemic dynamics on dynamically evolving ("adaptive") networks poses nontrivial challenges to the modeler, such as the determination of a small number of informative statistics of the detailed network state (that is, a few "good observables") that usefully summarize the overall (macroscopic, systems level) behavior. Trying to obtain reduced, small size, accurate models in terms of these few statistical observables - that is, coarse-graining the full network epidemic model to a small but useful macroscopic one - is even more daunting. Here we describe a data-based approach t…
Empirical studies suggest that contact patterns follow heterogeneous inter-event times, meaning that intervals of high activity are followed by periods of inactivity. Combined with birth and death of individuals, these temporal constraints affect the spread of infections in a non-trivial way and are dependent on the particular contact dynamics. We propose a stochastic model to generate temporal networks where vertices make instantaneous contacts following heterogeneous inter-event times, and leave and enter the system at fixed rates. We study how these temporal properties affect the prevalence…
Social interactions are stratified in multiple contexts and are subject to complex temporal dynamics. The systematic study of these two features of social systems has started only very recently mainly thanks to the development of multiplex and time-varying networks. However, these two advancements have progressed almost in parallel with very little overlap. Thus, the interplay between multiplexity and the temporal nature of connectivity patterns is poorly understood. Here, we aim to tackle this limitation by introducing a time-varying model of multiplex networks. We are interested in character…
Passenger contact in public transit (PT) networks can be a key mediate in the spreading of infectious diseases. This paper proposes a time-varying weighted PT encounter network to model the spreading of infectious diseases through the PT systems. Social activity contacts at both local and global levels are also considered. We select the epidemiological characteristics of coronavirus disease 2019 (COVID-19) as a case study along with smart card data from Singapore to illustrate the model at the metropolitan level. A scalable and lightweight theoretical framework is derived to capture the time-v…
We perform an analytical sensitivity analysis for a model of a continuous-time branching process evolving on a fixed network. This allows us to determine the relative importance of the model parameters to the growth of the population on the network. We then apply our results to the early stages of an influenza-like epidemic spreading among a set of cities connected by air routes in the United States. We also consider vaccination and analyze the sensitivity of the total size of the epidemic with respect to the fraction of vaccinated people. Our analysis shows that the epidemic growth is more se…
The evolution of network structure and the spreading of epidemic are common coexistent dynamical processes. In most cases, network structure is treated either static or time-varying, supposing the whole network is observed in a same time window. In this paper, we consider the epidemic spreading on a network consisting of both static and time-varying structures. At meanwhile, the time-varying part and the epidemic spreading are supposed to be of the same time scale. We introduce a static and activity driven coupling (SADC) network model to characterize the coupling between static (strong) struc…
Time varying susceptibility of host at individual level due to waning and boosting immunity is known to induce rich long-term behavior of disease transmission dynamics. Meanwhile, the impact of the time varying heterogeneity of host susceptibility on the shot-term behavior of epidemics is not well-studied, even though the large amount of the available epidemiological data are the short-term epidemics. Here we constructed a parsimonious mathematical model describing the short-term transmission dynamics taking into account natural-boosting immunity by reinfection, and obtained the explicit solut…
Voluntary nonpharmaceutical intervention as a feedback-evolving game
CEFE, Univ Montpellier, CNRS, EPHE, IRD（法国国家科学研究中心、高等教育与研究学院、热带研究所）；Institute of Tropical Medicine, Nagasaki University（长崎大学热带医学研究所）；Multidisciplinary Pandemic Research Center, Nagasaki University（长崎大学多学科流行病研究中心）；National Institute of Genetics（国立遗传学研究所）；SOKENDAI（综合研究大学院大学）；The University of Queensland（昆士兰大学）；Yokohama National University（横滨国立大学）；The University of Tokyo（东京大学）
We present a contact-based model to study the spreading of epidemics by means of extending the dynamic message passing approach to temporal networks. The shift in perspective from node- to edge-centric quantities enables accurate modelling of Markovian susceptible-infected-recovered outbreaks on time-varying trees, i.e., temporal networks with a loop-free underlying topology. On arbitrary graphs, the proposed contact-based model incorporates potential structural and temporal heterogeneities of the underlying contact network and improves analytic estimations with respect to the individual-based…
In the present work, a non-linear stochastic model is presented to study the effect of time variation of transmission rates on the co-evolution of epidemics and its corresponding awareness over a two layered multiplex network. In this model, the infection transmission rate of a given node in the epidemic layer depends upon its awareness probability in the awareness layer. Similarly, the infection information transmission rate of a node in the awareness layer depends upon its infection probability in the epidemic layer. The spread of disease resulting from physical contacts is described in term…
Human contact networks are constituted by a multitude of individuals and pairwise contacts among them. However, the dynamic nature, which generates the evolution of human contact networks, of contact patterns is not known yet. Here, we analyse three empirical datasets and identify two crucial mechanisms of the evolution of temporal human contact networks, i.e. the activity state transition laws for an individual to be socially active, and the contact establishment mechanism that active individuals adopt. We consider both of the two mechanisms to propose a temporal network model, named the memo…
We show how one can trace in a systematic way the coarse-grained solutions of individual-based stochastic epidemic models evolving on heterogeneous complex networks with respect to their topological characteristics. In particular, we have developed algorithms that allow the tuning of the transitivity (clustering coefficient) and the average mean-path length allowing the investigation of the "pure" impacts of the two characteristics on the emergent behavior of detailed epidemic models. The framework could be used to shed more light into the influence of weak and strong social ties on epidemic s…
We study SIS epidemic spreading processes unfolding on a recent generalisation of the activity-driven modelling framework. In this model of time-varying networks each node is described by two variables: activity and attractiveness. The first, describes the propensity to form connections. The second, defines the propensity to attract them. We derive analytically the epidemic threshold considering the timescale driving the evolution of contacts and the contagion as comparable. The solutions are general and hold for any joint distribution of activity and attractiveness. The theoretical picture is…
Vaccination is crucial for the control of epidemics. Yet it is a social dilemma since non-vaccinators can benefit from the herd immunity created by the vaccinators. Thus the optimum vaccination level is not reached via voluntary vaccination at times. Intensive studies incorporate social networks to study vaccination behavior, and it is shown that vaccination can be promoted on some networks. The underlying network, however, is often assumed to be static, neglecting the dynamical nature of social networks. We investigate the vaccination behavior on dynamical social networks using both simulatio…
Data of physical contacts and face-to-face communications suggest temporally varying networks as the media on which infections take place among humans and animals. Epidemic processes on temporal networks are complicated by complexity of both network structure and temporal dimensions. Theoretical approaches are much needed for identifying key factors that affect dynamics of epidemics. In particular, what factors make some temporal networks stronger media of infection than other temporal networks is under debate. We develop a theory to understand the susceptible-infected-susceptible epidemic mod…
In many real-world complex systems, the time-evolution of the network's structure and the dynamic state of its nodes are closely entangled. Here, we study opinion formation and imitation on an adaptive complex network which is dependent on the individual dynamic state of each node and vice versa to model the co-evolution of renewable resources with the dynamics of harvesting agents on a social network. The adaptive voter model is coupled to a set of identical logistic growth models and we show that in such systems, the rate of interactions between nodes as well as the adaptive rewiring probabi…
Spreading processes represent a very efficient tool to investigate the structural properties of networks and the relative importance of their constituents, and have been widely used to this aim in static networks. Here we consider simple disease spreading processes on empirical time-varying networks of contacts between individuals, and compare the effect of several immunization strategies on these processes. An immunization strategy is defined as the choice of a set of nodes (individuals) who cannot catch nor transmit the disease. This choice is performed according to a certain ranking of the …
Genotype networks drive oscillating endemicity and epidemic trajectories in viral evolution
University of Zaragoza（萨拉戈萨大学）；Institute of Biocomputation and Physics of Complex Systems (BIFI), University of Zaragoza（萨拉戈萨大学复杂系统生物计算与物理研究所 (BIFI)）；Universitat Rovira i Virgili（罗维拉-伊-维尔吉利大学）；Pacific Northwest National Laboratory（太平洋西北国家实验室）；University of Kobe（神户大学）
We present a modelling framework for the spreading of epidemics on temporal networks from which both the individual-based and pair-based models can be recovered. The proposed temporal pair-based model that is systematically derived from this framework offers an improvement over existing pair-based models by moving away from edge-centric descriptions while keeping the description concise and relatively simple. For the contagion process, we consider the Susceptible-Infected-Recovered (SIR) model, which is realized on a network with time-varying edges. We show that the shift in perspective from i…
The mobility patterns of individuals in China during the early outbreak of the COVID-19 pandemic exhibit reversible changes -- in many regions, the mobility first decreased significantly and later restored. Based on this observation, here we study the classical SIR model on a particular type of time-varying network where the links undergo a freeze-recovery process. We first focus on an isolated network and find that the recovery mechanism could lead to the resurgence of an epidemic. The influence of link freezing on epidemic dynamics is subtle. In particular, we show that there is an optimal v…
We show that qualitatively different epidemic-like processes from distinct societal domains (finance, social and commercial blockbusters, epidemiology) can be quantitatively understood using the same unifying conceptual framework taking into account the interplay between the timescales of the grouping and fragmentation of social groups together with typical epidemic transmission processes. Different domain-specific empirical infection profiles, featuring multiple resurgences and abnormal decay times, are reproduced simply by varying the timescales for group formation and individual transmissio…
The epidemic threshold of a spreading process indicates the condition for the occurrence of the wide spreading regime, thus representing a predictor of the network vulnerability to the epidemic. Such threshold depends on the natural history of the disease and on the pattern of contacts of the network with its time variation. Based on the theoretical framework introduced in (Valdano et al. PRX 2015) for a susceptible-infectious-susceptible model, we formulate here an infection propagator approach to compute the epidemic threshold accounting for more realistic effects regarding a varying force o…
In this paper we present ACEMod, an agent-based modelling framework for studying influenza epidemics in Australia. The simulator is designed to analyse the spatiotemporal spread of contagion and influenza spatial synchrony across the nation. The individual-based epidemiological model accounts for mobility (worker and student commuting) patterns and human interactions derived from the 2006 Australian census and other national data sources. The high-precision simulation comprises 19.8 million stochastically generated software agents and traces the dynamics of influenza viral infection and transm…
The importance of modeling the spread of epidemics through a population has led to the development of mathematical models for infectious disease propagation. A number of empirical studies have collected and analyzed data on contacts between individuals using a variety of sensors. Typically one uses such data to fit a probabilistic model of network contacts over which a disease may propagate. In this paper, we investigate the effects of different contact network models with varying levels of complexity on the outcomes of simulated epidemics using a stochastic Susceptible-Infectious-Recovered (S…
We investigate the evolution of epidemics over dynamical networks when nodes choose to interact with others in a selfish and decentralized manner. Specifically, we analyze the susceptible-asymptomatic-infected-recovered (SAIR) epidemic in the framework of activity-driven networks with heterogeneous node degrees and time-varying activation rates, and derive both individual and degree-based mean-field approximations of the exact state evolution. We then present a game-theoretic model where nodes choose their activation probabilities in a strategic manner using current state information as feedba…
Time-varying network topologies can deeply influence dynamical processes mediated by them. Memory effects in the pattern of interactions among individuals are also known to affect how diffusive and spreading phenomena take place. In this paper we analyze the combined effect of these two ingredients on epidemic dynamics on networks. We study the susceptible-infected-susceptible (SIS) and the susceptible-infected-removed (SIR) models on the recently introduced activity-driven networks with memory. By means of an activity-based mean-field approach we derive, in the long time limit, analytical pre…
Initially emerged in the Chinese city Wuhan and subsequently spread almost worldwide causing a pandemic, the SARS-CoV-2 virus follows reasonably well the SIR (Susceptible-Infectious-Recovered) epidemic model on contact networks in the Chinese case. In this paper, we investigate the prediction accuracy of the SIR model on networks also for Italy. Specifically, the Italian regions are a metapopulation represented by network nodes and the network links are the interactions between those regions. Then, we modify the network-based SIR model in order to take into account the different lockdown measu…
The evolution of epidemiological parameters, such as instantaneous reproduction number Rt, is important for understanding the transmission dynamics of infectious diseases. Current estimates of time-varying epidemiological parameters often face problems such as lagging observations, averaging inference, and improper quantification of uncertainties. To address these problems, we propose a Bayesian data assimilation framework for time-varying parameter estimation. Specifically, this framework is applied to Rt estimation, resulting in the state-of-the-art DARt system. With DARt, time misalignment …
The propagations of diseases, behaviors and information in real systems are rarely independent of each other, but they are coevolving with strong interactions. To uncover the dynamical mechanisms, the evolving spatiotemporal patterns and critical phenomena of networked coevolution spreading are extremely important, which provide theoretical foundations for us to control epidemic spreading, predict collective behaviors in social systems, and so on. The coevolution spreading dynamics in complex networks has thus attracted much attention in many disciplines. In this review, we introduce recent pr…
Contact tracing via digital tracking applications installed on mobile phones is an important tool for controlling epidemic spreading. Its effectivity can be quantified by modifying the standard methodology for analyzing percolation and connectivity of contact networks. We apply this framework to networks with varying degree distributions, numbers of application users, and probabilities of quarantine failures. Further, we study structured populations with homophily and heterophily and the possibility of degree-targeted application distribution. Our results are based on a combination of explicit…
The challenges presented by the COVID-19 epidemic have created a renewed interest in the development of new methods to combat infectious diseases. A prominent property of the SARS-CoV-2 transmission is the significant fraction of asymptomatic transmission. This may influence the effectiveness of the standard contact tracing procedure for quarantining potentially infected individuals. However, the effects of asymptomatic transmission on the epidemic threshold of epidemic spreading on networks are largely unknown. Here we study the critical percolation transition in a simple epidemic network mod…
The time variation of contacts in a networked system may fundamentally alter the properties of spreading processes and affect the condition for large-scale propagation, as encoded in the epidemic threshold. Despite the great interest in the problem for the physics, applied mathematics, computer science and epidemiology communities, a full theoretical understanding is still missing and currently limited to the cases where the time-scale separation holds between spreading and network dynamics or to specific temporal network models. We consider a Markov chain description of the Susceptible-Infect…
In recent years the research community has accumulated overwhelming evidence for the emergence of complex and heterogeneous connectivity patterns in a wide range of biological and sociotechnical systems. The complex properties of real-world networks have a profound impact on the behavior of equilibrium and nonequilibrium phenomena occurring in various systems, and the study of epidemic spreading is central to our understanding of the unfolding of dynamical processes in complex networks. The theoretical analysis of epidemic spreading in heterogeneous networks requires the development of novel a…
Population heterogeneity, especially in individuals' contact networks, plays an important role in transmission dynamics of infectious diseases. For vaccine-preventable diseases, outstanding issues like vaccine hesitancy and availability of vaccines further lead to nonuniform coverage among groups, not to mention the efficacy of vaccines and the mixing pattern varying from one group to another. As the ongoing COVID-19 pandemic transitions to endemicity, it is of interest and significance to understand the impact of aforementioned population heterogeneity on the emergence and persistence of epid…
Recent Covid-19 pandemic has demonstrated the need of efficient epidemic outbreak management. We study the optimal control problem of minimizing the fraction of infected population by applying vaccination and treatment control strategies, while at the same time minimizing the cost of implementing them. We model the epidemic using the degree based Susceptible-Infected-Recovered (SIR) compartmental model. We study the impact of varying network topologies on the optimal epidemic management strategies and present results for the Erdos-Renyi, scale free, and real world networks. For efficient compu…
Dynamic networks exhibit temporal patterns that vary across different time scales, all of which can potentially affect processes that take place on the network. However, most data-driven approaches used to model time-varying networks attempt to capture only a single characteristic time scale in isolation --- typically associated with the short-time memory of a Markov chain or with long-time abrupt changes caused by external or systemic events. Here we propose a unified approach to model both aspects simultaneously, detecting short and long-time behaviors of temporal networks. We do so by devel…
Conditional Inverse Learning of Time-Varying Reproduction Numbers Inference
College of Computer Science, Sichuan University, Chengdu, China（四川大学计算机学院）；Engineering Research Center of Machine Learning and Industry Intelligence, Ministry of Education, Sichuan University, Chengdu, China（教育部机器学习与产业智能工程研究中心）
We provide numerical evidence for slow dynamics of the susceptible-infected-susceptible model evolving on finite-size random networks with power-law degree distributions. Extensive simulations were done by averaging the activity density over many realizations of networks. We investigated the effects of outliers in both highly fluctuating (natural cutoff) and non-fluctuating (hard cutoff) most connected vertices. Logarithmic and power-law decays in time were found for natural and hard cutoffs, respectively. This happens in extended regions of the control parameter space $λ_1<λ<λ_2$, suggesting …
We consider recurrent contagious processes on a time-varying network. As a control procedure to mitigate the epidemic, we propose an adaptive rewiring mechanism for temporary isolation of infected nodes upon their detection. As a case study, we investigate the network of pig trade in Germany. Based on extensive numerical simulations for a wide range of parameters, we demonstrate that the adaptation mechanism leads to a significant extension of the parameter range, for which most of the index nodes (origins of the epidemic) lead to vanishing epidemics. Furthermore the performance of adaptation …
