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Register a new userPredicting Infectiousness for Proactive Contact Tracing
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Nasim Rahaman
Publication date
2020
fields
Informatics Engineering
and research's language is
English
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The COVID-19 pandemic has spread rapidly worldwide, overwhelming manual contact tracing in many countries and resulting in widespread lockdowns for emergency containment. Large-scale digital contact tracing (DCT) has emerged as a potential solution to resume economic and social activity while minimizing spread of the virus. Various DCT methods have been proposed, each making trade-offs between privacy, mobility restrictions, and public health. The most common approach, binary contact tracing (BCT), models infection as a binary event, informed only by an individuals test results, with corresponding binary recommendations that either all or none of the individuals contacts quarantine. BCT ignores the inherent uncertainty in contacts and the infection process, which could be used to tailor messaging to high-risk individuals, and prompt proactive testing or earlier warnings. It also does not make use of observations such as symptoms or pre-existing medical conditions, which could be used to make more accurate infectiousness predictions. In this paper, we use a recently-proposed COVID-19 epidemiological simulator to develop and test methods that can be deployed to a smartphone to locally and proactively predict an individuals infectiousness (risk of infecting others) based on their contact history and other information, while respecting strong privacy constraints. Predictions are used to provide personalized recommendations to the individual via an app, as well as to send anonymized messages to the individuals contacts, who use this information to better predict their own infectiousness, an approach we call proactive contact tracing (PCT). We find a deep-learning based PCT method which improves over BCT for equivalent average mobility, suggesting PCT could help in safe re-opening and second-wave prevention.
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Digital contact tracing apps for COVID, such as the one developed by Google and Apple, need to estimate the risk that a user was infected during a particular exposure, in order to decide whether to notify the user to take precautions, such as entering into quarantine, or requesting a test. Such risk score models contain numerous parameters that must be set by the public health authority. In this paper, we show how to automatically learn these parameters from data. Our method needs access to exposure and outcome data. Although this data is already being collected (in an aggregated, privacy-preserving way) by several health authorities, in this paper we limit ourselves to simulated data, so that we can systematically study the different factors that affect the feasibility of the approach. In particular, we show that the parameters become harder to estimate when there is more missing data (e.g., due to infections which were not recorded by the app), and when there is model misspecification. Nevertheless, the learning approach outperforms a strong manually designed baseline. Furthermore, the learning approach can adapt even when the risk factors of the disease change, e.g., due to the evolution of new variants, or the adoption of vaccines.
The rapid global spread of COVID-19 has led to an unprecedented demand for effective methods to mitigate the spread of the disease, and various digital contact tracing (DCT) methods have emerged as a component of the solution. In order to make informed public health choices, there is a need for tools which allow evaluation and comparison of DCT methods. We introduce an agent-based compartmental simulator we call COVI-AgentSim, integrating detailed consideration of virology, disease progression, social contact networks, and mobility patterns, based on parameters derived from empirical research. We verify by comparing to real data that COVI-AgentSim is able to reproduce realistic COVID-19 spread dynamics, and perform a sensitivity analysis to verify that the relative performance of contact tracing methods are consistent across a range of settings. We use COVI-AgentSim to perform cost-benefit analyses comparing no DCT to: 1) standard binary contact tracing (BCT) that assigns binary recommendations based on binary test results; and 2) a rule-based method for feature-based contact tracing (FCT) that assigns a graded level of recommendation based on diverse individual features. We find all DCT methods consistently reduce the spread of the disease, and that the advantage of FCT over BCT is maintained over a wide range of adoption rates. Feature-based methods of contact tracing avert more disability-adjusted life years (DALYs) per socioeconomic cost (measured by productive hours lost). Our results suggest any DCT method can help save lives, support re-opening of economies, and prevent second-wave outbreaks, and that FCT methods are a promising direction for enriching BCT using self-reported symptoms, yielding earlier warning signals and a significantly reduced spread of the virus per socioeconomic cost.
Knowledge Transfer has been applied in solving a wide variety of problems. For example, knowledge can be transferred between tasks (e.g., learning to handle novel situations by leveraging prior knowledge) or between agents (e.g., learning from others without direct experience). Without loss of generality, we relate knowledge transfer to KL-divergence minimization, i.e., matching the (belief) distributions of learners and teachers. The equivalence gives us a new perspective in understanding variants of the KL-divergence by looking at how learners structure their interaction with teachers in order to acquire knowledge. In this paper, we provide an in-depth analysis of KL-divergence minimization in Forward and Backward orders, which shows that learners are reinforced via on-policy learning in Backward. In contrast, learners are supervised in Forward. Moreover, our analysis is gradient-based, so it can be generalized to arbitrary tasks and help to decide which order to minimize given the property of the task. By replacing Forward with Backward in Knowledge Distillation, we observed +0.7-1.1 BLEU gains on the WMT17 De-En and IWSLT15 Th-En machine translation tasks.
Although the challenge of the device connection is much relieved in 5G networks, the training latency is still an obstacle preventing Federated Learning (FL) from being largely adopted. One of the most fundamental problems that lead to large latency is the bad candidate-selection for FL. In the dynamic environment, the mobile devices selected by the existing reactive candidate-selection algorithms very possibly fail to complete the training and reporting phases of FL, because the FL parameter server only knows the currently-observed resources of all candidates. To this end, we study the proactive candidate-selection for FL in this paper. We first let each candidate device predict the qualities of both its training and reporting phases locally using LSTM. Then, the proposed candidateselection algorithm is implemented by the Deep Reinforcement Learning (DRL) framework. Finally, the real-world trace-driven experiments prove that the proposed approach outperforms the existing reactive algorithms
We present an evaluation of the effectiveness of manual contact tracing compared to bulletin board contact tracing. We show that bulletin board contact tracing gives comparable results in terms of the reproductive number, duration, prevalence and incidence but is less resource intensive, easier to implement and offers a wider range of privacy options. Classical contact tracing focuses on contacting individuals whom an infectious person has been in proximity to. A bulletin board approach focuses on identifying locations visited by an infectious person, and then contacting those who were at those locations. We present results comparing their effects on the overall reproductive number as well as the incidence and prevalence of disease. We evaluate them by building a new discrete time stochastic model based on the Susceptible Exposed Infectious and Recovered (SEIR) framework for disease spread. We conduct simulation experiments to quantify the effectiveness of these two models of contact tracing by calibrating the model to be compatible with SARS-CoV-2. Our experiments show that location-based bulletin board contact tracing can improve manual contact tracing.
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