DeepTrace: Learning to Optimize Contact Tracing in Epidemic Networks With Graph Neural Networks

Digital contact tracing aims to curb epidemics by identifying and mitigating public health emergencies through technology. Backward contact tracing, which tracks the sources of infection, proved crucial in places like Japan for identifying COVID-19 infections from superspreading events. This paper presents a novel perspective on digital contact tracing by modeling it as an online graph exploration problem, framing forward and backward tracing strategies as maximum-likelihood estimation tasks that leverage iterative sampling of epidemic network data. The challenge lies in the combinatorial complexity and rapid spread of infections. We introduce <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">DeepTrace</i>, an algorithm based on a Graph Neural Network that iteratively updates its estimations as new contact tracing data is collected, learning to optimize the maximum likelihood estimation by utilizing topological features to accelerate learning and improve convergence. The contact tracing process combines either BFS or DFS to expand the network and trace the infection source, ensuring efficient real-time exploration. Additionally, the GNN model is fine-tuned through a two-phase approach: pre-training with synthetic networks to approximate likelihood probabilities and fine-tuning with high-quality data to refine the model. Using COVID-19 variant data, we illustrate that <italic xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">DeepTrace</i> surpasses current methods in identifying superspreaders, providing a robust basis for a scalable digital contact tracing strategy.