Inferring change points in the COVID-19 spreading reveals the effectiveness of interventions
arXiv:2004.01105 · doi:10.1126/science.abb9789
Abstract
As COVID-19 is rapidly spreading across the globe, short-term modeling forecasts provide time-critical information for decisions on containment and mitigation strategies. A main challenge for short-term forecasts is the assessment of key epidemiological parameters and how they change when first interventions show an effect. By combining an established epidemiological model with Bayesian inference, we analyze the time dependence of the effective growth rate of new infections. Focusing on the COVID-19 spread in Germany, we detect change points in the effective growth rate that correlate well with the times of publicly announced interventions. Thereby, we can quantify the effect of interventions, and we can incorporate the corresponding change points into forecasts of future scenarios and case numbers. Our code is freely available and can be readily adapted to any country or region.
23 pages, 11 figures. Our code is freely available and can be readily adapted to any country or region ( https://github.com/Priesemann-Group/covid19_inference_forecast/ )
References in corpus (16)
- Practical Bayesian model evaluation using leave-one-out cross-validation and WAIC
- The No-U-Turn Sampler: Adaptively Setting Path Lengths in Hamiltonian Monte Carlo
- Forecast and Control of Epidemics in a Globalized World
- Effective containment explains sub-exponential growth in confirmed cases of recent COVID-19 outbreak in Mainland China
- Inferring change points in the COVID-19 spreading reveals the effectiveness of interventions
- Colloquium: Criticality and dynamical scaling in living systems
- Exact analytical solutions of the Susceptible-Infected-Recovered (SIR) epidemic model and of the SIR model with equal death and birth rates
- Modelling transmission and control of the COVID-19 pandemic in Australia
- A Time-dependent SIR model for COVID-19 with Undetectable Infected Persons
- Epidemic threshold for the SIS model on networks
- Automatic Differentiation Variational Inference
- Inferring collective dynamical states from widely unobserved systems
- Epidemic analysis of COVID-19 in China by dynamical modeling
- A simple unified view of branching process statistics: random walks in balanced logarithmic potentials
- Containment efficiency and control strategies for the Corona pandemic costs
- Bi-stability of SUDR+K model of epidemics and test kits applied to COVID-19
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- A Time-dependent SIR model for COVID-19 with Undetectable Infected Persons
- Predictability: Can the turning point and end of an expanding epidemic be precisely forecast?
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- Key Questions for Modelling COVID-19 Exit Strategies
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- Forecasting the daily and cumulative number of cases for the COVID-19 pandemic in India
- A look into the future of the COVID-19 pandemic in Europe: an expert consultation
- Beyond just "flattening the curve": Optimal control of epidemics with purely non-pharmaceutical interventions
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- Epidemics, the Ising-model and percolation theory: a comprehensive review focussed on Covid-19
- Shut and re-open: the role of schools in the spread of COVID-19 in Europe
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- The first 100 days: modeling the evolution of the COVID-19 pandemic
- Low case numbers enable long-term stable pandemic control without lockdowns
- Dynamics, behaviours, and anomaly persistence in cryptocurrencies and equities surrounding COVID-19
- OutbreakFlow: Model-based Bayesian inference of disease outbreak dynamics with invertible neural networks and its application to the COVID-19 pandemics in Germany
- COVID-19 Impact on Global Maritime Mobility
- Association between COVID-19 cases and international equity indices
- SIRNet: Understanding Social Distancing Measures with Hybrid Neural Network Model for COVID-19 Infectious Spread
- A control theory approach to optimal pandemic mitigation
- EpiBeds: Data informed modelling of the COVID-19 hospital burden in England
- Metapopulation Graph Neural Networks: Deep Metapopulation Epidemic Modeling with Human Mobility
- Sequential Change-point Detection for High-dimensional and non-Euclidean Data
- Stochastic effects on the dynamics of an epidemic due to population subdivision
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- Data-Driven Methods to Monitor, Model, Forecast and Control Covid-19 Pandemic: Leveraging Data Science, Epidemiology and Control Theory
- Towards predicting COVID-19 infection waves: A random-walk Monte Carlo simulation approach
- Social stress drives the multi-wave dynamics of COVID-19 outbreaks
- Quickest Detection and Forecast of Pandemic Outbreaks: Analysis of COVID-19 Waves
- On the heterogeneous spread of COVID-19 in Chile
- How Robust are the Estimated Effects of Nonpharmaceutical Interventions against COVID-19?
- Spatial Bayesian Hierarchical Modelling with Integrated Nested Laplace Approximation
- Inferring Spatial Source of Disease Outbreaks using Maximum Entropy
- Containing a pandemic: Nonpharmaceutical interventions and the "second wave"
- A realistic agent-based simulation model for COVID-19 based on a traffic simulation and mobile phone data
- Parallel Minority Game and it's application in movement optimization during an epidemic
- Decision Support for the Quickest Detection of Critical COVID-19 Phases
- On SIR-type epidemiological models and population heterogeneity effects
- Uncertainty quantification in covid-19 spread: lockdown effects
- The influence of a transport process on the epidemic threshold
- COVID-19 Policy Impact Evaluation: A guide to common design issues
- Semi-supervised Neural Networks solve an inverse problem for modeling Covid-19 spread
- Large-deviations of the SIR model around the epidemic threshold
- Causal analysis of Covid-19 spread in Germany
- Temporal clustering of social interactions trades-off disease spreading and knowledge diffusion
- Hybrid Modeling of Regional COVID-19 Transmission Dynamics in the U.S
- An epidemiological compartmental model with automated parameter estimation and forecasting of the spread of COVID-19 with analysis of data from Germany and Brazil
- Some distance bounds of branching processes and their diffusion limits
- Efficient Multi-Change Point Analysis to decode Economic Crisis Information from the S&P500 Mean Market Correlation
- Modeling the evolution of COVID-19 via compartmental and particle-based approaches: application to the Cyprus case
- Mutation induced infection waves in diseases like COVID-19
- A simple computational approach to the Susceptible-Infected-Recovered (SIR) epidemic model via the Laplace-Adomian Decomposition Method
- Machine learning predictions of COVID-19 second wave end-times in Indian states
- Quantifying socioeconomic activities and weather effects on the global spread of COVID-19 epidemic
- Aging and equilibration in bistable contagion dynamics
- Series solution of the Susceptible-Infected-Recovered (SIR) epidemic model with vital dynamics via the Adomian and Laplace-Adomian Decomposition Methods
- Sequential time-window learning with approximate Bayesian computation: an application to epidemic forecasting
- Data-driven approach in a compartmental epidemic model to assess undocumented infections
- Effects of Antivaccine Tweets on COVID-19 Vaccinations, Cases, and Deaths
- Optimal policies for mitigating pandemic costs
- A computationally efficient, high-dimensional multiple changepoint procedure with application to global terrorism incidence
- Inference under Superspreading: Determinants of SARS-CoV-2 Transmission in Germany
- Studying the course of Covid-19 by a recursive delay approach
- Smart testing and critical care bed sharing for COVID-19 control
- Infections Forecasting and Intervention Effect Evaluation for COVID-19 via a Data-Driven Markov Process and Heterogeneous Simulation
- Estimation of the Distribution of the Individual Reproduction Number: The Case of the COVID-19 Pandemic
- Robust estimation of SARS-CoV-2 epidemic in US counties
- A hospital demand and capacity intervention approach for COVID-19 in the UK
- The advantage of self-protecting interventions in mitigating epidemic circulation at the community level
- Environmental conditions and human activity nexus. The case of Northern Italy during COVID-19 lockdown
- Projecting and comparing non-pharmaceutical interventions to contain COVID-19 in major economies
- Geometric characterization of SARS-CoV-2 pandemic events