A Bayesian Analysis of Correlated Interval-Censored Data

In epidemiological studies where subjects are seen periodically on follow-up visits, interval-censored data occur naturally. The exact time the change of state (such as HIV seroconversion) occurs is not known exactly, only that it occurred within some time interval. In multi-stage sampling or partner tracing studies, individuals are grouped into smaller subgroups. Individuals within a subgroup share an unobservable specific frailty which induces correlation within the subgroup. In this paper, we consider a Bayesian model for analysing correlated interval-censored data. Parameters are estimated using the Markov chain Monte Carlo methods, specifically the Gibbs sampler.     

Bayesian Spatial Analysis for the Evaluation of Breast Cancer Detection Methods

This study investigated the impact of spatial location on the effectiveness of population‐based breast screening in reducing breast cancer mortality compared to other detection methods among Queensland women. The analysis was based on linked population‐based datasets from BreastScreen Queensland and the Queensland Cancer Registry for the period of 1997–2008 for women aged less than 90 years at diagnosis. A Bayesian hierarchical regression modelling approach was adopted and posterior estimation was performed using Markov Chain Monte Carlo techniques. This approach accommodated sparse data resulting from rare outcomes in small geographic areas, while allowing for spatial correlation and demographic influences to be included. A relative survival model was chosen to evaluate the relative excess risk for each breast cancer related factor. Several models were fitted to examine the influence of demographic information, cancer stage, geographic information and detection method on women's relative survival. Overall, the study demonstrated that including the detection method and geographic information when assessing the relative survival of breast cancer patients helped capture unexplained and spatial variability. The study also found evidence of better survival among women with breast cancer diagnosed in a screening program than those detected otherwise, as well as lower risk for those residing in a more urban or socio‐economically advantaged region, even after adjusting for tumour stage, environmental factors and demographics. However, no evidence of dependency between method of detection and geographic location was found. This project provides a sophisticated approach to examining the benefit of a screening program while considering the influence of geographic factors.     

Bayesian Analysis of Masked Series System Lifetime Data

The problem of analyzing series system lifetime data with masked or partial information on cause of failure is recent, compared to that of the standard competing risks model. A generic Gibbs sampling scheme is developed in this article towards a Bayesian analysis for a general parametric competing risks model with masked cause of failure data. The masking probabilities are not subjected to the symmetry assumption and independent Dirichlet priors are used to marginalize these nuisance parameters. The developed methodology is illustrated for the case where the components of a series system have independent log-Normal life distributions by employing independent Normal-Gamma priors for these component lifetime parameters. The Gibbs sampling scheme developed for the required analysis can also be used to provide a Bayesian analysis of data arising from the conventional competing risks model of independent log-Normals, which interestingly has so far remained by and large neglected in the literature. The developed methodology is deployed to analyze a masked lifetime data of PS/2 computer systems.     

Flexible Bayesian Modelling for Survival Data

The analysis of failure time data often involves two strong assumptions. The proportional hazards assumption postulates that hazard rates corresponding to different levels of explanatory variables are proportional. The additive effects assumption specifies that the effect associated with a particular explanatory variable does not depend on the levels of other explanatory variables. A hierarchical Bayes model is presented, under which both assumptions are relaxed. In particular, time-dependent covariate effects are explicitly modelled, and the additivity of effects is relaxed through the use of a modified neural network structure. The hierarchical nature of the model is useful in that it parsimoniously penalizes violations of the two assumptions, with the strength of the penalty being determined by the data.     

面板数据的贝叶斯Elastic Net分位数回归方法及其应用研究

本文首次将Elastic Net这种用于高度相关变量的惩罚方法用于面板数据的贝叶斯分位数回归,并基于非对称Laplace先验分布推导所有参数的后验分布,进而构建Gibbs抽样。为了验证模型的有效性,本文将面板数据的贝叶斯Elastic Net分位数回归方法(BQR. EN)与面板数据的贝叶斯分位数回归方法(BQR)、面板数据的贝叶斯Lasso分位数回归方法(BLQR)、面板数据的贝叶斯自适应Lasso分位数回归方法(BALQR)进行了多种情形下的全方位比较,结果表明BQR. EN方法适用于具有高度相关性、数据维度很高和尖峰厚尾分布特征的数据。进一步地,本文就BQR. EN方法在不同扰动项假设、不同样本量的情形展开模拟比较,验证了新方法的稳健性和小样本特性。最后,本文选取互联网金融类上市公司经济增加值(EVA)作为实证研究对象,检验新方法在实际问题中的参数估计与变量选择能力,实证结果符合预期。     

Some Bayesian Methods for Two Auditing Problems

Two problems of interest to auditors are: (i) finding an upper bound for the total amount of overstatement of assets in a set of accounts; and (ii) estimating the amount of sales tax owed on a collection of transactions. For the first problem, the Stringer bound has often been used despite the fact that in many cases it is known to be much too large. Here we will introduce a family of stepwise Bayes models that yields bounds that are closely related to the Stringer bound but are less conservative. Then we will show how this approach can also be used for solving the second problem. This will allow practitioners with modest amounts of prior information to select inference procedures with good frequentist properties.     

Bayesian Transformation Models for Multivariate Survival Data

In this paper, we propose a general class of Gamma frailty transformation models for multivariate survival data. The transformation class includes the commonly used proportional hazards and proportional odds models. The proposed class also includes a family of cure rate models. Under an improper prior for the parameters, we establish propriety of the posterior distribution. A novel Gibbs sampling algorithm is developed for sampling from the observed data posterior distribution. A simulation study is conducted to examine the properties of the proposed methodology. An application to a data set from a cord blood transplantation study is also reported.     

Comparisons of Some Graphical Methods for Exploratory Multivariate Data Analysis

Kleiner and Hartigan (1981) introduced trees and castles (graphical techniques for representing multidimensional data) in which the variables are assigned to components of the display on the basis of hierarchical clustering. An experiment was performed to assess the efficacy of trees and castles in discrimination. The graphs were compared to two types of histograms: one with variables assigned randomly, the other with variables assigned according to hierarchical clustering. Trees tended to give the best results.     

An Interest-rate Model Analysis Based on Data Augmentation Bayesian Forecasting

In this paper, the author presents an efficient method of analyzing an interest-rate model using a new approach called 'data augmentation Bayesian forecasting.' First, a dynamic linear model estimation was constructed with a hierarchically-incorporated model. Next, an observational replication was generated based on the one-step forecast distribution derived from the model. A Markov-chain Monte Carlo sampling method was conducted on it as a new observation and unknown parameters were estimated. At that time, the EM algorithm was applied to establish initial values of unknown parameters while the 'quasi Bayes factor' was used to appreciate parameter candidates. 'Data augmentation Bayesian forecasting' is a method of evaluating the transition and history of 'future,' 'present' and 'past' of an arbitrary stochastic process by which an appropriate evaluation is conducted based on the probability measure that has been sequentially modified with additional information. It would be possible to use future prediction results for modifying the model to grasp the present state or re-evaluate the past state. It would be also possible to raise the degree of precision in predicting the future through the modification of the present and the past. Thus, 'data augmentation Bayesian forecasting' is applicable not only in the field of financial data analysis but also in forecasting and controlling the stochastic process.     

Bayesian Analysis of Masked Data in Step-stress Accelerated Life Testing

This article considers a k level step-stress accelerated life testing (ALT) on series system products, where independent Weibull-distributed lifetimes are assumed for the components. Due to cost considerations or environmental restrictions, causes of system failures are masked and type-I censored observations might occur in the collected data. Bayesian approach combined with auxiliary variables is developed for estimating the parameters of the model. Further, the reliability and hazard rate functions of the system and components are estimated at a specified time at use stress level. The proposed method is illustrated through a numerical example based on two priors and various masking probabilities.     

Bayesian Analysis of DNA Profiling Data in Forensic Identification Applications

The utilization of DNA evidence in cases of forensic identification has become widespread over the last few years. The strength of this evidence against an individual standing trial is typically presented in court in the form of a likelihood ratio (LR) or its reciprocal (the profile match probability). The value of this LR will vary according to the nature of the genetic relationship between the accused and other possible perpetrators of the crime in the population. This paper develops ideas and methods for analysing data and evaluating LRs when the evidence is based on short tandem repeat profiles, with special emphasis placed on a Bayesian approach. These are then applied in the context of a particular quadruplex profiling system used for routine case-work by the UK Forensic Science Service.     

Nonparametric Bayesian Analysis of Competing Risks Problem with Masked Data

Bayesian analysis of system failure data under a competing-failure framework is considered when the failure causes have not been exactly identified but narrowed down to a subset of all potential failure causes. The usual assumption of independence of failure causes is relaxed. We obtain the posterior distribution of the joint survival function, assuming a Dirichlet process prior, and derive the limiting posterior distribution. We show that the posterior estimate of the reliability of the series system of interest in practice is consistent. A numerical example shows that our approach is feasible.     

Bayesian Inference for Contact Networks Given Epidemic Data

Abstract. In this article, we estimate the parameters of a simple random network and a stochastic epidemic on that network using data consisting of recovery times of infected hosts. The SEIR epidemic model we fit has exponentially distributed transmission times with Gamma distributed exposed and infectious periods on a network where every edge exists with the same probability, independent of other edges. We employ a Bayesian framework and Markov chain Monte Carlo (MCMC) integration to make estimates of the joint posterior distribution of the model parameters. We discuss the accuracy of the parameter estimates under various prior assumptions and show that it is possible in many scientifically interesting cases to accurately recover the parameters. We demonstrate our approach by studying a measles outbreak in Hagelloch, Germany, in 1861 consisting of 188 affected individuals. We provide an R package to carry out these analyses, which is available publicly on the Comprehensive R Archive Network.     

Semiparametric Bayesian Techniques for Problems in Circular Data

In this paper, we consider the problems of prediction and tests of hypotheses for directional data in a semiparametric Bayesian set-up. Observations are assumed to be independently drawn from the von Mises distribution and uncertainty in the location parameter is modelled by a Dirichlet process. For the prediction problem, we present a method to obtain the predictive density of a future observation, and, for the testing problem, we present a method of computing the Bayes factor by obtaining the posterior probabilities of the hypotheses under consideration. The semiparametric model is seen to be flexible and robust against prior misspecifications. While analytical expressions are intractable, the methods are easily implemented using the Gibbs sampler. We illustrate the methods with data from two real-life examples.     

Methods for Constructing Uncertainty Intervals for Queries of Bayesian Nets

In this paper the issue of finding uncertainty intervals for queries in a Bayesian Network is reconsidered. The investigation focuses on Bayesian Nets with discrete nodes and finite populations. An earlier asymptotic approach is compared with a simulation‐based approach, together with further alternatives, one based on a single sample of the Bayesian Net of a particular finite population size, and another which uses expected population sizes together with exact probabilities. We conclude that a query of a Bayesian Net should be expressed as a probability embedded in an uncertainty interval. Based on an investigation of two Bayesian Net structures, the preferred method is the simulation method. However, both the single sample method and the expected sample size methods may be useful and are simpler to compute. Any method at all is more useful than none, when assessing a Bayesian Net under development, or when drawing conclusions from an ‘expert’ system.     

Bayesian Methods for Missing Covariates in Cure Rate Models

We propose methods for Bayesian inference for missing covariate data with a novel class of semi-parametric survival models with a cure fraction. We allow the missing covariates to be either categorical or continuous and specify a parametric distribution for the covariates that is written as a sequence of one dimensional conditional distributions. We assume that the missing covariates are missing at random (MAR) throughout. We propose an informative class of joint prior distributions for the regression coefficients and the parameters arising from the covariate distributions. The proposed class of priors are shown to be useful in recovering information on the missing covariates especially in situations where the missing data fraction is large. Properties of the proposed prior and resulting posterior distributions are examined. Also, model checking techniques are proposed for sensitivity analyses and for checking the goodness of fit of a particular model. Specifically, we extend the Conditional Predictive Ordinate (CPO) statistic to assess goodness of fit in the presence of missing covariate data. Computational techniques using the Gibbs sampler are implemented. A real data set involving a melanoma cancer clinical trial is examined to demonstrate the methodology.