Challenges of COVID-19 Case Forecasting in the US, 2020-2021.

Abstract

During the COVID-19 pandemic, forecasting COVID-19 trends to support planning and response was a priority for scientists and decision makers alike. In the United States, COVID-19 forecasting was coordinated by a large group of universities, companies, and government entities led by the Centers for Disease Control and Prevention and the US COVID-19 Forecast Hub (https://covid19forecasthub.org). We evaluated approximately 9.7 million forecasts of weekly state-level COVID-19 cases for predictions 1-4 weeks into the future submitted by 24 teams from August 2020 to December 2021. We assessed coverage of central prediction intervals and weighted interval scores (WIS), adjusting for missing forecasts relative to a baseline forecast, and used a Gaussian generalized estimating equation (GEE) model to evaluate differences in skill across epidemic phases that were defined by the effective reproduction number. Overall, we found high variation in skill across individual models, with ensemble-based forecasts outperforming other approaches. Forecast skill relative to the baseline was generally higher for larger jurisdictions (e.g., states compared to counties). Over time, forecasts generally performed worst in periods of rapid changes in reported cases (either in increasing or decreasing epidemic phases) with 95% prediction interval coverage dropping below 50% during the growth phases of the winter 2020, Delta, and Omicron waves. Ideally, case forecasts could serve as a leading indicator of changes in transmission dynamics. However, while most COVID-19 case forecasts outperformed a naïve baseline model, even the most accurate case forecasts were unreliable in key phases. Further research could improve forecasts of leading indicators, like COVID-19 cases, by leveraging additional real-time data, addressing performance across phases, improving the characterization of forecast confidence, and ensuring that forecasts were coherent across spatial scales. In the meantime, it is critical for forecast users to appreciate current limitations and use a broad set of indicators to inform pandemic-related decision making.

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Citation

Published Version (Please cite this version)

10.1371/journal.pcbi.1011200

Publication Info

Lopez, Velma K, Estee Y Cramer, Robert Pagano, John M Drake, Eamon B O'Dea, Madeline Adee, Turgay Ayer, Jagpreet Chhatwal, et al. (2024). Challenges of COVID-19 Case Forecasting in the US, 2020-2021. PLoS computational biology, 20(5). p. e1011200. 10.1371/journal.pcbi.1011200 Retrieved from https://hdl.handle.net/10161/30772.

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Scholars@Duke

Xu

Pan Xu

Assistant Professor of Biostatistics & Bioinformatics

My research is centered around Machine Learning, with broad interests in the areas of Artificial Intelligence, Data Science, Optimization, Reinforcement Learning, High Dimensional Statistics, and their applications to real-world problems including Bioinformatics and Healthcare. My research goal is to develop computationally- and data-efficient machine learning algorithms with both strong empirical performance and theoretical guarantees.


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