SaMMBA Seminars

Predicting epidemic risk from contact and mobility data

Abstract: 
The vulnerability of a host population to a specific disease measures how likely pathogen introduction will lead to an epidemic outbreak, and how hard it is to contain or eliminate an ongoing one. Predicting vulnerability is thus key to designing risk-reduction strategies that limit disease burden on public health and economic development. To do that, highly-resolved data tracking contacts and mobility of the host population need to integrate into detailed models of disease dynamics. This represents a twofold challenge. Firstly, we need theoretical frameworks that turn data feeds into predictors of epidemic risk, and can identify which of the structural features of the host population drive its vulnerability. Secondly, we need new ways to access, analyze, and share the relevant contact and mobility data: a necessary step to make our predictions realistic and reliable. In my talk, I will address both issues. I will show how to analytically derive the conditions that discriminate between epidemic regime and quick pathogen extinction, by representing empirically measured contacts as time-evolving complex networks. The analytical core of this theory leads to a broad range of applications. At the same time, its data-driven nature prompts context-specific predictions that can inform policymaking, as I will show in two case studies: reorganizing nurse scheduling to reduce the risk of spread of healthcare-associated infections; linking the features of livestock trade movements to the spatial spread of cattle diseases. The latter application is also an example of how limited access and incomplete data collection represent a big hurdle to predictive vulnerability analysis. To overcome this, I will present a collaborative platform for analyzing and comparing trade networks coming from several European countries. Using a bring code to the data approach, our platform surmounts the strict regulations preventing data sharing, and builds an algorithm that predicts vulnerability even in situations when limited data on cattle trade are available. The ultimate goal of all these theoretical and numerical developments is to inform strategies that reduce the vulnerability of the host population by restructuring its contacts. However, such restructuring may entail a feedback effect, acting as selective pressure on the pathogen itself. In the last part of my talk, I will extend the developed formalism to modeling evolutionary pathways that maximize the invasion potential of the pathogen, given the observed host population structure. Specifically, I will link the emergence of exotic replication behaviors in plant-infecting viruses to historical changes in plant distribution patterns.

Contact : Vittoria Colizza

Tuesday, June 4^th, 2019
12 noon -1 pm
Institut Pasteur
 

Tuesday, Sept 5^th, 2017
12 noon -1 pm
Institut Pasteur
Room BIME 28-01-01A

Tini Garske

 Cécile Viboud

 Troy Day

 Wednesday May 2nd 2018
12 noon -1pm
Institut Pasteur

Phylodynamic inference in viral outbreaks: power and limitations.