Adaptive data-driven age and patch mixing in contact networks with recurrent mobility

Infectious disease transmission models often stratify populations by age and geographic patches. Contact patterns between age groups and patches are key parameters in such models. Arenas et al. (2020) develop an approach to simulate contact patterns associated with recurrent mobility between patches, such as due to work, school, and other regular travel. Using their approach, mixing between patches is greater than mobility data alone would suggest, because individuals from patches A and B can form contacts if they meet in patch C. We build upon their approach to address three potential gaps that remain, outlined in the bullets below. We describe the steps required to implement our approach in detail, and present step-wise results of an example application to generate contact matrices for SARS-CoV-2 transmission modelling in Ontario, Canada. We also provide methods for deriving the mobility matrix based on GPS mobility data (appendix). • Our approach includes a distribution of contacts by age that is responsive to the underlying age distributions of the mixing populations. • Our approach maintains different age mixing patterns by contact type, such that changes to the numbers of different types of contacts are appropriately reflected in changes to overall age mixing patterns. • Our approach distinguishes between two mixing pools associated with each patch, with possible implications for the overall connectivity of the population: the home pool, in which contacts can only be formed with other individuals residing in the same patch, and the travel pool, in which contacts can be formed with some residents of, and any other visitors to the patch.