Predicting infectious disease outbreak risk via migratory waterfowl vectors

The spread of an emerging infectious disease is a major public health threat. Given the uncertainties associated with vector-borne diseases, in terms of vector dynamics and disease transmission, it is critical to develop statistical models that address how and when such an infectious disease could spread throughout a region such as the USA. This paper considers a spatio-temporal statistical model for how an infectious disease could be carried into the USA by migratory waterfowl vectors during their seasonal migration and, ultimately, the risk of transmission of such a disease to domestic fowl. Modeling spatio-temporal data of this type is inherently difficult given the uncertainty associated with observations, complexity of the dynamics, high dimensionality of the underlying process, and the presence of excessive zeros. In particular, the spatio-temporal dynamics of the waterfowl migration are developed by way of a two-tiered functional temporal and spatial dimension reduction procedure that captures spatial and seasonal trends, as well as regional dynamics. Furthermore, the model relates the migration to a population of poultry farms that are known to be susceptible to such diseases, and is one of the possible avenues toward transmission to domestic poultry and humans. The result is a predictive distribution of those counties containing poultry farms that are at the greatest risk of having the infectious disease infiltrate their flocks assuming that the migratory population was infected. The model naturally fits into the hierarchical Bayesian framework.     

Bayesian factor models in characterizing molecular adaptation

Assessing the selective influence of amino acid properties is important in understanding evolution at the molecular level. A collection of methods and models has been developed in recent years to determine if amino acid sites in a given DNA sequence alignment display substitutions that are altering or conserving a prespecified set of amino acid properties. Residues showing an elevated number of substitutions that favorably alter a physicochemical property are considered targets of positive natural selection. Such approaches usually perform independent analyses for each amino acid property under consideration, without taking into account the fact that some of the properties may be highly correlated. We propose a Bayesian hierarchical regression model with latent factor structure that allows us to determine which sites display substitutions that conserve or radically change a set of amino acid properties, while accounting for the correlation structure that may be present across such properties. We illustrate our approach by analyzing simulated data sets and an alignment of lysin sperm DNA.     

On Graphing Paired Data

Techniques for graphing paired data are considered. A conventional method frequently used when reporting scientific results, particularly in medical journals, involves representing pairs of measurements by straight line segments titled at different angles related to the differences between the components of the data pairs. However when the sample size is only moderately large, this type of display can become cluttered and thus uninformative due to overlap. It is suggested that a new graph that combines features of ANOVA plots and multivalued dot charts may provide a more effective visual display of paired data. A designed experiment in data perception using simulated data provides some evidence in favor of this parallel line plot.     

Bayesian Binomial Regression: Predicting Survival at a Trauma Center

Standard methods for analyzing binomial regression data rely on asymptotic inferences. Bayesian methods can be performed using simple computations, and they apply for any sample size. We provide a relatively complete discussion of Bayesian inferences for binomial regression with emphasis on inferences for the probability of “success.” Furthermore, we illustrate diagnostic tools, perform model selection among nonnested models, and examine the sensitivity of the Bayesian methods.     

Bayes designs for multiple linear regression on the unit sphere

We deal with experimental designs minimizing the mean square error of the linear BAYES estimator for the parameter vector of a multiple linear regression model where the experimental region is the k-dimensional unit sphere. After computing the uniquely determined optimum information matrix, we construct, separately for the homogeneous and the inhomogeneous model, both approximate and exact designs having such an information matrix.     

Dependence Between Two Diagnostic Tests with Copula Function Approach: A Simulation Study

The study of the dependence between two medical diagnostic tests is an important issue in health research since it can modify the diagnosis and, therefore, the decision regarding a therapeutic treatment for an individual. In many practical situations, the diagnostic procedure includes the use of two tests, with outcomes on a continuous scale. For final classification, usually there is an additional “gold standard” or reference test. Considering binary test responses, we usually assume independence between tests or a joint binary structure for dependence. In this article, we introduce a simulation study assuming two dependent dichotomized tests using two copula function dependence structures in the presence or absence of verification bias. We compare the test parameter estimators obtained under copula structure dependence with those obtained assuming binary dependence or assuming independent tests.     

Combining Economic Forecasts

A method for combining forecasts may or may not account for dependence and differing precision among forecasts. In this article we test a variety of such methods in the context of combining forecasts of GNP from four major econometric models. The methods include one in which forecasting errors are jointly normally distributed and several variants of this model as well as some simpler procedures and a Bayesian approach with a prior distribution based on exchangeability of forecasters. The results indicate that a simple average, the normal model with an independence assumption, and the Bayesian model perform better than the other approaches that are studied here.     

The Quantitative Significance of the Lucas Critique

Doan, Litterman, and Sims (DLS) have suggested using conditional forecasts to do policy analysis with Bayesian vector autoregression (BVAR) models. Their method seems to violate the Lucas critique, which implies that coefficients of a BVAR model will change when there is a change in policy rules. In this article, we attempt to determine whether the Lucas critique is important quantitatively in a BVAR macro model that we construct. We find evidence following two candidate policy rule changes of significant coefficient instability and of a deterioration in the performance of the DLS method.     

A bayesian analysis of trend determination in economic time series

In this paper we provide a comprehensive Bayesian posterior analysis of trend determination in general autoregressive models. Multiple lag autoregressive models with fitted drifts and time trends as well as models that allow for certain types of structural change in the deterministic components are considered. We utilize a modified information matrix-based prior that accommodates stochastic nonstationarity, takes into account the interactions between long-run and short-run dynamics and controls the degree of stochastic nonstationarity permitted. We derive analytic posterior densities for all of the trend determining parameters via the Laplace approximation to multivariate integrals. We also address the sampling properties of our posteriors under alternative data generating processes by simulation methods. We apply our Bayesian techniques to the Nelson-Plosser macroeconomic data and various stock price and dividend data. Contrary to DeJong and Whiteman (1989a,b,c), we do not find that the data overwhelmingly favor the existence of deterministic trends over stochastic trends. In addition, we find evidence supporting Perron's (1989) view that some of the Nelson and Plosser data are best construed as trend stationary with a change in the trend function occurring at 1929.