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Register a new userA general theory for preferential sampling in environmental networks
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Added by
Joe Watson
Publication date
2018
fields
Mathematical Statistics
and research's language is
English
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This paper presents a general model framework for detecting the preferential sampling of environmental monitors recording an environmental process across space and/or time. This is achieved by considering the joint distribution of an environmental process with a site--selection process that considers where and when sites are placed to measure the process. The environmental process may be spatial, temporal or spatio--temporal in nature. By sharing random effects between the two processes, the joint model is able to establish whether site placement was stochastically dependent of the environmental process under study. The embedding into a spatio--temporal framework also allows for the modelling of the dynamic site---selection process itself. Real--world factors affecting both the size and location of the network can be easily modelled and quantified. Depending upon the choice of population of locations to consider for selection across space and time under the site--selection process, different insights about the precise nature of preferential sampling can be obtained. The general framework developed in the paper is designed to be easily and quickly fit using the R-INLA package. We apply this framework to a case study involving particulate air pollution over the UK where a major reduction in the size of a monitoring network through time occurred. It is demonstrated that a significant response--biased reduction in the air quality monitoring network occurred. We also show that the network was consistently unrepresentative of the levels of particulate matter seen across much of GB throughout the operating life of the network. Finally we show that this may have led to a severe over-reporting of the population--average exposure levels experienced across GB. This could have great impacts on estimates of the health effects of black smoke levels.
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Phylodynamics seeks to estimate effective population size fluctuations from molecular sequences of individuals sampled from a population of interest. One way to accomplish this task formulates an observed sequence data likelihood exploiting a coalescent model for the sampled individuals genealogy and then integrating over all possible genealogies via Monte Carlo or, less efficiently, by conditioning on one genealogy estimated from the sequence data. However, when analyzing sequences sampled serially through time, current methods implicitly assume either that sampling times are fixed deterministically by the data collection protocol or that their distribution does not depend on the size of the population. Through simulation, we first show that, when sampling times do probabilistically depend on effective population size, estimation methods may be systematically biased. To correct for this deficiency, we propose a new model that explicitly accounts for preferential sampling by modeling the sampling times as an inhomogeneous Poisson process dependent on effective population size. We demonstrate that in the presence of preferential sampling our new model not only reduces bias, but also improves estimation precision. Finally, we compare the performance of the currently used phylodynamic methods with our proposed model through clinically-relevant, seasonal human influenza examples.
A string of tracers, interacting elastically, in a turbulent flow is shown to have a dramatically different behaviour when compared to the non-interacting case. In particular, such an elastic chain shows strong preferential sampling of the turbulent flow unlike the usual tracer limit: an elastic chain is trapped in the vortical regions and not the straining ones. The degree of preferential sampling and its dependence on the elasticity of the chain is quantified via the Okubo-Weiss parameter. The effect of modifying the deformability of the chain, via the number of links that form it, is also examined.
We consider a general preferential attachment model, where the probability that a newly arriving vertex connects to an older vertex is proportional to a sublinear function of the indegree of the older vertex at that time. It is well known that the distribution of a uniformly chosen vertex converges to a limiting distribution. Depending on the parameters, this model can show power law, but also stretched exponential behaviour. Using Steins method we provide rates of convergence for the total variation distance. Our proof uses the fact that the limiting distribution is the stationary distribution of a Markov chain together with the generator method of Barbour.
Environmental health studies are increasingly measuring multiple pollutants to characterize the joint health effects attributable to exposure mixtures. However, the underlying dose-response relationship between toxicants and health outcomes of interest may be highly nonlinear, with possible nonlinear interaction effects. Existing penalized regression methods that account for exposure interactions either cannot accommodate nonlinear interactions while maintaining strong heredity or are computationally unstable in applications with limited sample size. In this paper, we propose a general shrinkage and selection framework to identify noteworthy nonlinear main and interaction effects among a set of exposures. We design hierarchical integrative group LASSO (HiGLASSO) to (a) impose strong heredity constraints on two-way interaction effects (hierarchical), (b) incorporate adaptive weights without necessitating initial coefficient estimates (integrative), and (c) induce sparsity for variable selection while respecting group structure (group LASSO). We prove sparsistency of the proposed method and apply HiGLASSO to an environmental toxicants dataset from the LIFECODES birth cohort, where the investigators are interested in understanding the joint effects of 21 urinary toxicant biomarkers on urinary 8-isoprostane, a measure of oxidative stress. An implementation of HiGLASSO is available in the higlasso R package, accessible through the Comprehensive R Archive Network.
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