The p-values for one-sided hypothesis testing in univariate linear calibration

In this article, we focus on the one-sided hypothesis testing for the univariate linear calibration, where a normally distributed response variable and an explanatory variable are involved. The observations of the response variable corresponding to known values of the explanatory variable are used to make inferences on a single unknown value of the explanatory variable. We apply the generalized inference to the calibration problem, and take the generalized p-value as the test statistic to develop a new p-value for one-sided hypothesis testing, which we refer to as the one-sided posterior predictive p-value. The behavior of the one-sided posterior predictive p-value is numerically compared with that of the generalized p-value, and simulations show that the proposed p-value is quite satisfactory in the frequentist performance.     

Wavelet packet transfer function modelling of nonstationary time series

This article shows how a non-decimated wavelet packet transform (NWPT) can be used to model a response time series, Y _t, in terms of an explanatory time series, X _t. The proposed computational technique transforms the explanatory time series into a NWPT representation and then uses standard statistical modelling methods to identify which wavelet packets are useful for modelling the response time series. We exhibit S-Plus functions from the freeware WaveThresh package that implement our methodology.The proposed modelling methodology is applied to an important problem from the wind energy industry: how to model wind speed at a target location using wind speed and direction from a reference location. Our method improves on existing target site wind speed predictions produced by widely used industry standard techniques. However, of more importance, our NWPT representation produces models to which we can attach physical and scientific interpretations and in the wind example enable us to understand more about the transfer of wind energy from site to site.     

Dependent Right Censorship in the MOMW Distribution

In this paper, we consider paired survival data, in which pair members are subject to the same right censoring time, but they are dependent on each other. Assuming the Marshall–Olkin Multivariate Weibull distribution for the joint distribution of the lifetimes (X₁, X₂) and the censoring time X₃, we derive the joint density of the actual observed data and obtain maximum likelihood estimators, Bayes estimators and posterior regret Gamma minimax estimators of the unknown parameters under squared error loss and weighted squared error loss functions. We compare the performances of the maximum likelihood estimators and Bayes estimators numerically in terms of biases and estimated Mean Squared Error Loss.     

Bayesian Optimal Adaptive Estimation Using a Sieve Prior

We derive rates of contraction of posterior distributions on non‐parametric models resulting from sieve priors. The aim of the study was to provide general conditions to get posterior rates when the parameter space has a general structure, and rate adaptation when the parameter is, for example, a Sobolev class. The conditions employed, although standard in the literature, are combined in a different way. The results are applied to density, regression, nonlinear autoregression and Gaussian white noise models. In the latter we have also considered a loss function which is different from the usual l ² norm, namely the pointwise loss. In this case it is possible to prove that the adaptive Bayesian approach for the l ² loss is strongly suboptimal and we provide a lower bound on the rate.     

Bayesian mismeasurement t-models for censored responses

This paper aims at introducing a Bayesian robust error-in-variable regression model in which the dependent variable is censored. We extend previous works by assuming a multivariate t distribution for jointly modelling the behaviour of the errors and the latent explanatory variable. Inference is done under the Bayesian paradigm. We use a data augmentation approach and develop a Markov chain Monte Carlo algorithm to sample from the posterior distributions. We run a Monte Carlo study to evaluate the efficiency of the posterior estimators in different settings. We compare the proposed model to three other models previously discussed in the literature. As a by-product we also provide a Bayesian analysis of the t-tobit model. We fit all four models to analyse the 2001 Medical Expenditure Panel Survey data.     

A Bayesian random effects model for analyzing mixed negative binomial and continuous longitudinal responses

ABSTRACT

A general Bayesian random effects model for analyzing longitudinal mixed correlated continuous and negative binomial responses with and without missing data is presented. This Bayesian model, given some random effects, uses a normal distribution for the continuous response and a negative binomial distribution for the count response. A Markov Chain Monte Carlo sampling algorithm is described for estimating the posterior distribution of the parameters. This Bayesian model is illustrated by a simulation study. For sensitivity analysis to investigate the change of parameter estimates with respect to the perturbation from missing at random to not missing at random assumption, the use of posterior curvature is proposed. The model is applied to a medical data, obtained from an observational study on women, where the correlated responses are the negative binomial response of joint damage and continuous response of body mass index. The simultaneous effects of some covariates on both responses are also investigated.     

A Bayesian inference of P(λ1<λ2) for two Poisson parameters

The statistical inference drawn from the difference between two independent Poisson parameters is often discussed in the medical literature. However, such discussions are usually based on the frequentist viewpoint rather than the Bayesian viewpoint. Here, we propose an index θ=P(λ_{1, post}<λ_{2, post}), where λ_{1, post} and λ_{2, post} denote Poisson parameters following posterior density. We provide an exact and an approximate expression for calculating θ using the conjugate gamma prior and compare the probabilities obtained using the approximate and the exact expressions. Moreover, we also show a relation between θ and the p-value. We also highlight the significance of θ by applying it to the result of actual clinical trials. Our findings suggest that θ may provide useful information in a clinical trial.     

A Condition to Obtain the Same Decision in the Homogeneity Testing Problem from the Frequentist and Bayesian Point of View

We develop a Bayesian procedure for the homogeneity testing problem of r populations using r × s contingency tables. The posterior probability of the homogeneity null hypothesis is calculated using a mixed prior distribution. The methodology consists of choosing an appropriate value of π₀ for the mass assigned to the null and spreading the remainder, 1 ? π₀, over the alternative according to a density function. With this method, a theorem which shows when the same conclusion is reached from both frequentist and Bayesian points of view is obtained. A sufficient condition under which the p-value is less than a value α and the posterior probability is also less than 0.5 is provided.     

Bayesian estimation for percolation models of disease spread in plant populations

Statistical methods are formulated for fitting and testing percolation-based, spatio-temporal models that are generally applicable to biological or physical processes that evolve in spatially distributed populations. The approach is developed and illustrated in the context of the spread of Rhizoctonia solani, a fungal pathogen, in radish but is readily generalized to other scenarios. The particular model considered represents processes of primary and secondary infection between nearest-neighbour hosts in a lattice, and time-varying susceptibility of the hosts. Bayesian methods for fitting the model to observations of disease spread through space and time in replicate populations are developed. These use Markov chain Monte Carlo methods to overcome the problems associated with partial observation of the process. We also consider how model testing can be achieved by embedding classical methods within the Bayesian analysis. In particular we show how a residual process, with known sampling distribution, can be defined. Model fit is then examined by generating samples from the posterior distribution of the residual process, to which a classical test for consistency with the known distribution is applied, enabling the posterior distribution of the P-value of the test used to be estimated. For the Rhizoctonia-radish system the methods confirm the findings of earlier non-spatial analyses regarding the dynamics of disease transmission and yield new evidence of environmental heterogeneity in the replicate experiments.     

Convergence Analysis of MCMC Algorithms for Bayesian Multivariate Linear Regression with Non‐Gaussian Errors

When Gaussian errors are inappropriate in a multivariate linear regression setting, it is often assumed that the errors are iid from a distribution that is a scale mixture of multivariate normals. Combining this robust regression model with a default prior on the unknown parameters results in a highly intractable posterior density. Fortunately, there is a simple data augmentation (DA) algorithm and a corresponding Haar PX‐DA algorithm that can be used to explore this posterior. This paper provides conditions (on the mixing density) for geometric ergodicity of the Markov chains underlying these Markov chain Monte Carlo algorithms. Letting d denote the dimension of the response, the main result shows that the DA and Haar PX‐DA Markov chains are geometrically ergodic whenever the mixing density is generalized inverse Gaussian, log‐normal, inverted Gamma (with shape parameter larger than d /2) or Fréchet (with shape parameter larger than d /2). The results also apply to certain subsets of the Gamma, F and Weibull families.     

Regularized Posteriors in Linear Ill‐Posed Inverse Problems

Abstract. We study the Bayesian solution of a linear inverse problem in a separable Hilbert space setting with Gaussian prior and noise distribution. Our contribution is to propose a new Bayes estimator which is a linear and continuous estimator on the whole space and is stronger than the mean of the exact Gaussian posterior distribution which is only defined as a measurable linear transformation. Our estimator is the mean of a slightly modified posterior distribution called regularized posterior distribution. Frequentist consistency of our estimator and of the regularized posterior distribution is proved. A Monte Carlo study and an application to real data confirm good small‐sample properties of our procedure.     

A Multiple Comparison Procedure Based on a Variant of the Schwarz Information Criterion in a Mixed Model

Repeated measurements are collected in a variety of situations and are generally characterized by a mixed model where the correlation within the subject is specified by the random effects. In such a mixed model, we propose a multiple comparison procedure based on a variant of the Schwarz information criterion (SIC; Schwarz, 1978 Schwarz , G. ( 1978 ). Estimating the dimension of a model . Ann. Statist. 6 : 461 – 464 .[Crossref], [Web of Science ®] , [Google Scholar]). The derivation of SIC indicates that SIC serves as an asymptotic approximation to a transformation of the Bayesian posterior probability of a candidate model. Therefore, an approximated posterior probability for a candidate model can be calculated based upon SIC. We suggest a variant of SIC which includes the terms which are asymptotically negligible in the derivation of SIC. The variant improves upon the performance of SIC in small and moderate sample-size applications. Based upon the proposed variant, the corresponding posterior probability can be calculated for each candidate model. A hypothesis testing for multiple comparisons involves one or more models in the candidate class, the posterior probability of the hypothesis testing is therefore evaluated as the sum of the posterior probabilities for the models associated with the testing. The approximated posterior probability based on the variant accommodates the effect of the prior on each model in the candidate class, and therefore is more effectively approximated than that based on SIC for conducting multiple comparisons. We derive the computational formula of the approximated posterior probability based on the variant in the mixed model. The applications in two real data sets demonstrate that the proposed procedure based on the SIC variant can perform effectively in multiple comparisons.     

Model based labeling for mixture models

Label switching is one of the fundamental problems for Bayesian mixture model analysis. Due to the permutation invariance of the mixture posterior, we can consider that the posterior of a m-component mixture model is a mixture distribution with m! symmetric components and therefore the object of labeling is to recover one of the components. In order to do labeling, we propose to first fit a symmetric m!-component mixture model to the Markov chain Monte Carlo (MCMC) samples and then choose the label for each sample by maximizing the corresponding classification probabilities, which are the probabilities of all possible labels for each sample. Both parametric and semi-parametric ways are proposed to fit the symmetric mixture model for the posterior. Compared to the existing labeling methods, our proposed method aims to approximate the posterior directly and provides the labeling probabilities for all possible labels and thus has a model explanation and theoretical support. In addition, we introduce a situation in which the “ideally” labeled samples are available and thus can be used to compare different labeling methods. We demonstrate the success of our new method in dealing with the label switching problem using two examples.     

A non-iterative Bayesian sampling algorithm for censored Student-t linear regression models

ABSTRACT

In this paper, we consider an effective Bayesian inference for censored Student-t linear regression model, which is a robust alternative to the usual censored Normal linear regression model. Based on the mixture representation of the Student-t distribution, we propose a non-iterative Bayesian sampling procedure to obtain independently and identically distributed samples approximately from the observed posterior distributions, which is different from the iterative Markov Chain Monte Carlo algorithm. We conduct model selection and influential analysis using the posterior samples to choose the best fitted model and to detect latent outliers. We illustrate the performance of the procedure through simulation studies, and finally, we apply the procedure to two real data sets, one is the insulation life data with right censoring and the other is the wage rates data with left censoring, and we get some interesting results.     

Detecting change points and monitoring biomedical data

Bayesian and likelihood approaches to on-line detecting change points in time series are discussed and applied to analyze biomedical data. Using a linear dynamic model, the Bayesian analysis outputs the conditional posterior probability of a change at time t ? 1, given the data up to time t and the status of changes occurred before time t ? 1. The likelihood method is based on a change-point regression model and tests whether there is no change-point.     

Robust sequential designs for approximately linear models

We consider the problem of the sequential choice of design points in an approximately linear model. It is assumed that the fitted linear model is only approximately correct, in that the true response function contains a nonrandom, unknown term orthogonal to the fitted response. We also assume that the parameters are estimated by M-estimation. The goal is to choose the next design point in such a way as to minimize the resulting integrated squared bias of the estimated response, to order n^-1. Explicit applications to analysis of variance and regression are given. In a simulation study the sequential designs compare favourably with some fixed-sample-size designs which are optimal for the true response to which the sequential designs must adapt.     

Modeling with Mixtures of Linear Regressions

Consider data (x ₁,y ₁),...,(x _n,y _n), where each x _i may be vector valued, and the distribution of y _i given x _i is a mixture of linear regressions. This provides a generalization of mixture models which do not include covariates in the mixture formulation. This mixture of linear regressions formulation has appeared in the computer science literature under the name Hierarchical Mixtures of Experts model.This model has been considered from both frequentist and Bayesian viewpoints. We focus on the Bayesian formulation. Previously, estimation of the mixture of linear regression model has been done through straightforward Gibbs sampling with latent variables. This paper contributes to this field in three major areas. First, we provide a theoretical underpinning to the Bayesian implementation by demonstrating consistency of the posterior distribution. This demonstration is done by extending results in Barron, Schervish and Wasserman (Annals of Statistics 27: 536–561, 1999) on bracketing entropy to the regression setting. Second, we demonstrate through examples that straightforward Gibbs sampling may fail to effectively explore the posterior distribution and provide alternative algorithms that are more accurate. Third, we demonstrate the usefulness of the mixture of linear regressions framework in Bayesian robust regression. The methods described in the paper are applied to two examples.     

A novel Bayesian regression model for counts with an application to health data

Discrete data are collected in many application areas and are often characterised by highly-skewed distributions. An example of this, which is considered in this paper, is the number of visits to a specialist, often taken as a measure of demand in healthcare. A discrete Weibull regression model was recently proposed for regression problems with a discrete response and it was shown to possess desirable properties. In this paper, we propose the first Bayesian implementation of this model. We consider a general parametrization, where both parameters of the discrete Weibull distribution can be conditioned on the predictors, and show theoretically how, under a uniform non-informative prior, the posterior distribution is proper with finite moments. In addition, we consider closely the case of Laplace priors for parameter shrinkage and variable selection. Parameter estimates and their credible intervals can be readily calculated from their full posterior distribution. A simulation study and the analysis of four real datasets of medical records show promises for the wide applicability of this approach to the analysis of count data. The method is implemented in the R package BDWreg.     

Alternatives to post‐processing posterior predictive p values

The posterior predictive p value (ppp) was invented as a Bayesian counterpart to classical p values. The methodology can be applied to discrepancy measures involving both data and parameters and can, hence, be targeted to check for various modeling assumptions. The interpretation can, however, be difficult since the distribution of the ppp value under modeling assumptions varies substantially between cases. A calibration procedure has been suggested, treating the ppp value as a test statistic in a prior predictive test. In this paper, we suggest that a prior predictive test may instead be based on the expected posterior discrepancy, which is somewhat simpler, both conceptually and computationally. Since both these methods require the simulation of a large posterior parameter sample for each of an equally large prior predictive data sample, we furthermore suggest to look for ways to match the given discrepancy by a computation‐saving conflict measure. This approach is also based on simulations but only requires sampling from two different distributions representing two contrasting information sources about a model parameter. The conflict measure methodology is also more flexible in that it handles non‐informative priors without difficulty. We compare the different approaches theoretically in some simple models and in a more complex applied example.     

Correlation between Download and Citation and Download-citation Deviation Phenomenon for Some Papers in Chinese Medical Journals

The authors collected the numbers of citations and downloads from 2005 to 2009 of papers in five Chinese general ophthalmological journals: Recent Advances in Ophthalmology, Chinese Ophthalmic Research, Ophthalmology in China, Journal of Clinical Ophthalmology and Chinese Journal of Practical Ophthalmology, published in 2005 from the Chinese Academic Journals Full-text Database and the Chinese Citation Database in Chinese National Knowledge Infrastructure (CNKI) to determine the correlation between download and citation and the peak time of download frequency (DF). The citations from 2000 to 2009 of papers published in 2000 were collected to determine the peak time of citation frequency (CF) of medical papers. There is a highly positive correlation between DF and CF (r = 4.91, P = 0.000).