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Register a new userUnderstanding the Spread of COVID-19 Epidemic: A Spatio-Temporal Point Process View
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Since the first coronavirus case was identified in the U.S. on Jan. 21, more than 1 million people in the U.S. have confirmed cases of COVID-19. This infectious respiratory disease has spread rapidly across more than 3000 counties and 50 states in the U.S. and have exhibited evolutionary clustering and complex triggering patterns. It is essential to understand the complex spacetime intertwined propagation of this disease so that accurate prediction or smart external intervention can be carried out. In this paper, we model the propagation of the COVID-19 as spatio-temporal point processes and propose a generative and intensity-free model to track the spread of the disease. We further adopt a generative adversarial imitation learning framework to learn the model parameters. In comparison with the traditional likelihood-based learning methods, this imitation learning framework does not need to prespecify an intensity function, which alleviates the model-misspecification. Moreover, the adversarial learning procedure bypasses the difficult-to-evaluate integral involved in the likelihood evaluation, which makes the model inference more scalable with the data and variables. We showcase the dynamic learning performance on the COVID-19 confirmed cases in the U.S. and evaluate the social distancing policy based on the learned generative model.
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We established a Spatio-Temporal Neural Network, namely STNN, to forecast the spread of the coronavirus COVID-19 outbreak worldwide in 2020. The basic structure of STNN is similar to the Recurrent Neural Network (RNN) incorporating with not only temporal data but also spatial features. Two improved STNN architectures, namely the STNN with Augmented Spatial States (STNN-A) and the STNN with Input Gate (STNN-I), are proposed, which ensure more predictability and flexibility. STNN and its variants can be trained using Stochastic Gradient Descent (SGD) algorithm and its improved variants (e.g., Adam, AdaGrad and RMSProp). Our STNN models are compared with several classical epidemic prediction models, including the fully-connected neural network (BPNN), and the recurrent neural network (RNN), the classical curve fitting models, as well as the SEIR dynamical system model. Numerical simulations demonstrate that STNN models outperform many others by providing more accurate fitting and prediction, and by handling both spatial and temporal data.
In this work, we examine a novel forecasting approach for COVID-19 case prediction that uses Graph Neural Networks and mobility data. In contrast to existing time series forecasting models, the proposed approach learns from a single large-scale spatio-temporal graph, where nodes represent the region-level human mobility, spatial edges represent the human mobility based inter-region connectivity, and temporal edges represent node features through time. We evaluate this approach on the US county level COVID-19 dataset, and demonstrate that the rich spatial and temporal information leveraged by the graph neural network allows the model to learn complex dynamics. We show a 6% reduction of RMSLE and an absolute Pearson Correlation improvement from 0.9978 to 0.998 compared to the best performing baseline models. This novel source of information combined with graph based deep learning approaches can be a powerful tool to understand the spread and evolution of COVID-19. We encourage others to further develop a novel modeling paradigm for infectious disease based on GNNs and high resolution mobility data.
The new coronavirus known as COVID-19 is spread world-wide since December 2019. Without any vaccination or medicine, the means of controlling it are limited to quarantine and social distancing. Here we study the spatio-temporal propagation of the first wave of the COVID-19 virus in China and compare it to other global locations. We provide a comprehensive picture of the spatial propagation from Hubei to other provinces in China in terms of distance, population size, and human mobility and their scaling relations. Since strict quarantine has been usually applied between cities, more insight about the temporal evolution of the disease can be obtained by analyzing the epidemic within cities, especially the time evolution of the infection, death, and recovery rates which affected by policies. We study and compare the infection rate in different cities in China and provinces in Italy and find that the disease spread is characterized by a two-stages process. At early times, at order of few days, the infection rate is close to a constant probably due to the lack of means to detect infected individuals before infection symptoms are observed. Then at later times it decays approximately exponentially due to quarantines. The time evolution of the death and recovery rates also distinguish between these two stages and reflect the health system situation which could be overloaded.
The emergence of Covid-19 requires new effective tools for epidemiological surveillance. Spatio-temporal disease mapping models, which allow dealing with highly disaggregated spatial and temporal units of analysis, are a priority in this sense. Spatio-temporal models provide a geographically detailed and temporally updated overview of the current state of the pandemics, making public health interventions to be more effective. Moreover, the use of spatio-temporal disease mapping models in the new Covid-19 epidemic context, facilitates estimating newly demanded epidemiological indicators, such as the instantaneous reproduction number (R_t), even for small areas. This, in turn, allows to adapt traditional disease mapping models to these new circumstancies and make their results more useful in this particular context. In this paper we propose a new spatio-temporal disease mapping model, particularly suited to Covid-19 surveillance. As an additional result, we derive instantaneous reproduction number estimates for small areas, enabling monitoring this parameter with a high spatial disaggregation. We illustrate the use of our proposal with the separate study of the disease pandemics in two Spanish regions. As a result, we illustrate how touristic flows could haved shaped the spatial distribution of the disease. In these real studies, we also propose new surveillance tools that can be used by regional public health services to make a more efficient use of their resources.
SARS-CoV2, which causes coronavirus disease (COVID-19) is continuing to spread globally and has become a pandemic. People have lost their lives due to the virus and the lack of counter measures in place. Given the increasing caseload and uncertainty of spread, there is an urgent need to develop machine learning techniques to predict the spread of COVID-19. Prediction of the spread can allow counter measures and actions to be implemented to mitigate the spread of COVID-19. In this paper, we propose a deep learning technique, called Deep Sequential Prediction Model (DSPM) and machine learning based Non-parametric Regression Model (NRM) to predict the spread of COVID-19. Our proposed models were trained and tested on novel coronavirus 2019 dataset, which contains 19.53 Million confirmed cases of COVID-19. Our proposed models were evaluated by using Mean Absolute Error and compared with baseline method. Our experimental results, both quantitative and qualitative, demonstrate the superior prediction performance of the proposed models.
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