Analysis of Spatial and Spatiotemporal Anomalies Using Persistent Homology: Case Studies with COVID-19 Data (preprint)

We develop a method for analyzing spatial and spatiotemporal anomalies in geospatial data using topological data analysis (TDA). To do this, we use persistent homology (PH), which allows one to algorithmically detect geometric voids in a data set and quantify the persistence of such voids. We construct an efficient filtered simplicial complex (FSC) such that the voids in our FSC are in one-to-one correspondence with the anomalies. Our approach goes beyond simply identifying anomalies; it also encodes information about the relationships between anomalies. We use vineyards, which one can interpret as time-varying persistence diagrams (which are an approach for visualizing PH), to track how the locations of the anomalies change with time. We conduct two case studies using spatially heterogeneous COVID-19 data. First, we examine vaccination rates in New York City by zip code at a single point in time. Second, we study a year-long data set of COVID-19 case rates in neighborhoods of the city of Los Angeles.

A Multilayer Network Model of the Coevolution of the Spread of a Disease and Competing Opinions (preprint)

During the COVID-19 pandemic, conflicting opinions on physical distancing swept across social media, affecting both human behavior and the spread of COVID-19. Inspired by such phenomena, we construct a two-layer multiplex network for the coupled spread of a disease and conflicting opinions. We model each process as a contagion. On one layer, we consider the concurrent evolution of two opinions -- pro-physical-distancing and anti-physical-distancing -- that compete with each other and have mutual immunity to each other. The disease evolves on the other layer, and individuals are less likely (respectively, more likely) to become infected when they adopt the pro-physical-distancing (respectively, anti-physical-distancing) opinion. We develop approximations of mean-field type by generalizing monolayer pair approximations to multilayer networks; these approximations agree well with Monte Carlo simulations for a broad range of parameters and several network structures. Through numerical simulations, we illustrate the influence of opinion dynamics on the spread of the disease from complex interactions both between the two conflicting opinions and between the opinions and the disease. We find that lengthening the duration that individuals hold an opinion may help suppress disease transmission, and we demonstrate that increasing the cross-layer correlations or intra-layer correlations of node degrees may lead to fewer individuals becoming infected with the disease.

Topological Data Analysis of Spatial Systems (preprint)

In this chapter, we discuss applications of topological data analysis (TDA) to spatial systems. We briefly review the recently proposed level-set construction of filtered simplicial complexes, and we then examine persistent homology in two cases studies: street networks in Shanghai and hotspots of COVID-19 infections. We then summarize our results and provide an outlook on TDA in spatial systems.

Networks of Necessity: Simulating COVID-19 Mitigation Strategies for Disabled People and Their Caregivers (preprint)

A major strategy to prevent the spread of COVID-19 is the limiting of in-person contacts. However, this is impractical or impossible for the many disabled people who do not live in care facilities, but still require caregivers. We seek to determine which interventions can prevent infections among disabled people and their caregivers. We simulate transmission with a model that includes susceptible, exposed, asymptomatic, symptomatically ill, hospitalized, and removed individuals. The networks on which we simulate disease spread incorporate heterogeneity in the risks of different types of interactions, time-dependent lockdown and reopening measures, and contact distributions for four different groups (caregivers, disabled people, essential workers, and the general population). We find the probability of becoming infected is largest for caregivers and second largest for disabled people. Our analysis of network structure illustrates that caregivers have the largest modal eigenvector centrality. We find that two interventions -- contact-limiting by all groups and mask-wearing by disabled people and caregivers -- most reduce the cases among disabled people and caregivers. We also test which group spreads COVID-19 most readily by seeding infections in a subset of each group. We find caregivers are the most potent spreaders of COVID-19, particularly to other caregivers and to disabled people. We test where to use limited vaccine doses most effectively and find (1) vaccinating caregivers better protects disabled people than vaccinating the general population or essential workers and (2) vaccinating caregivers protects disabled people about as much as vaccinating disabled people themselves. Our results highlight the potential effectiveness of mask-wearing, contact-limiting throughout society, and strategic vaccination for limiting the exposure of disabled people and their caregivers to COVID-19.

Disease Detectives: Using Mathematics to Forecast the Spread of Infectious Diseases (preprint)

The COVID-19 pandemic has led to significant changes in how people are currently living their lives. To determine how to best reduce the effects of the pandemic and start reopening societies, governments have drawn insights from mathematical models of the spread of infectious diseases. In this article, we give an introduction to a family of mathematical models (called "compartmental models") and discuss how the results of analyzing these models influence government policies and human behavior, such as encouraging mask wearing and physical distancing to help slow the spread of the disease.