We propose a novel approach that integrates machine learning into compartmental disease modeling (e.g., SEIR) to predict the progression of COVID-19. Our model is explainable by design as it explicitly shows how different compartments evolve and it uses interpretable encoders to incorporate covariates and improve performance. Explainability is valuable to ensure that the model's forecasts are credible to epidemiologists and to instill confidence in end-users such as policy makers and healthcare institutions. Our model can be applied at different geographic resolutions, and we demonstrate it for states and counties in the United States. We show that our model provides more accurate forecasts compared to the alternatives, and that it provides qualitatively meaningful explanatory insights.

Table 1: Covariates selected for model.

Explainability is valuable to ensure that the model's forecasts are credible

In the related work section, the authors summarize some related models for infectious diseases and address their weaknesses. However, it seems none of them are used as baseline models for comparison in the experiment section. Instead, the authors present the results of five top-performing models designed for COVID-19. It would be better if the authors can give a summary of these COVID-19 models to address their weakness and point out the major improvement of their method compared with these ones. The author claims the extra compartment has significant benefits for the prediction. However, Table 4 does not directly show this benefit.

Three knowledgeable reviewers support acceptance, particularly due to the proposed model novelty, performance, interpretability, and relatively good reproducibility. I agree with these strengths and overall paper contribution and must accept. For the final version, please strongly consider enhancing the paper with (1) Code: making the code available will help with further research and reproducibility (2) Related work: it would be a great addition to the paper if the five top-performing models in the experiment section were explained in better detail in the related work section (see R2). (3) Limitations: address R3 feedback regarding acknowledging limitations.

We propose a novel approach that integrates machine learning into compartmental disease modeling (e.g., SEIR) to predict the progression of COVID-19. Our model is explainable by design as it explicitly shows how different compartments evolve and it uses interpretable encoders to incorporate covariates and improve performance. Explainability is valuable to ensure that the model's forecasts are credible to epidemiologists and to instill confidence in end-users such as policy makers and healthcare institutions. Our model can be applied at different geographic resolutions, and we demonstrate it for states and counties in the United States. We show that our model provides more accurate forecasts compared to the alternatives, and that it provides qualitatively meaningful explanatory insights.

In this work, we propose a deep learning approach to forecasting state-level COVID-19 trends of weekly cumulative death in the United States (US) and incident cases in Germany. This approach includes a transformer model, an ensemble method, and a data augmentation technique for time series. We arrange the inputs of the transformer in such a way that predictions for different states can attend to the trends of the others. To overcome the issue of scarcity of training data for this COVID-19 pandemic, we have developed a novel data augmentation technique to generate useful data for training. More importantly, the generated data can also be used for model validation. As such, it has a two-fold advantage: 1) more actual observations can be used for training, and 2) the model can be validated on data which has distribution closer to the expected situation. Our model has achieved some of the best state-level results on the COVID-19 Forecast Hub for the US and for Germany.

The outburst of COVID-19 in late 2019 was the start of a health crisis that shook the world and took millions of lives in the ensuing years. Many governments and health officials failed to arrest the rapid circulation of infection in their communities. The long incubation period and the large proportion of asymptomatic cases made COVID-19 particularly elusive to track. However, wastewater monitoring soon became a promising data source in addition to conventional indicators such as confirmed daily cases, hospitalizations, and deaths. Despite the consensus on the effectiveness of wastewater viral load data, there is a lack of methodological approaches that leverage viral load to improve COVID-19 forecasting. This paper proposes using deep learning to automatically discover the relationship between daily confirmed cases and viral load data. We trained one Deep Temporal Convolutional Networks (DeepTCN) and one Temporal Fusion Transformer (TFT) model to build a global forecasting model. We supplement the daily confirmed cases with viral loads and other socio-economic factors as covariates to the models. Our results suggest that TFT outperforms DeepTCN and learns a better association between viral load and daily cases. We demonstrated that equipping the models with the viral load improves their forecasting performance significantly. Moreover, viral load is shown to be the second most predictive input, following the containment and health index. Our results reveal the feasibility of training a location-agnostic deep-learning model to capture the dynamics of infection diffusion when wastewater viral load data is provided.

Currently, the evolution of Covid-19 allows researchers to gather the datasets accumulated over 2 years and to use them in predictive analysis. In turn, this makes it possible to assess the efficiency potential of more complex predictive models, including neural networks with different forecast horizons. In this paper, we present the results of a consistent comparative study of different types of methods for predicting the dynamics of the spread of Covid-19 based on regional data for two countries: the United States and Russia. We used well-known statistical methods (e.g., Exponential Smoothing), a "tomorrow-as-today" approach, as well as a set of classic machine learning models trained on data from individual regions. Along with them, a neural network model based on Long short-term memory (LSTM) layers was considered, the training samples of which aggregate data from all regions of two countries: the United States and Russia. Efficiency evaluation was carried out using cross-validation according to the MAPE metric. It is shown that for complicated periods characterized by a large increase in the number of confirmed daily cases, the best results are shown by the LSTM model trained on all regions of both countries, showing an average Mean Absolute Percentage Error (MAPE) of 18%, 30%, 37% for Russia and 31%, 41%, 50% for US for predictions at forecast horizons of 14, 28, and 42 days, respectively.