We address the problem of providing inference from a Bayesian perspective for parameters selected after viewing the data. We present a Bayesian framework for providing inference for selected parameters, based on the observation that providing Bayesian inference for selected parameters is a truncated data problem. We show that if the prior for the parameter is non-informative, or if the parameter is a "fixed" unknown constant, then it is necessary to adjust the Bayesian inference for selection. Our second contribution is the introduction of Bayesian False Discovery Rate controlling methodology,which generalizes existing Bayesian FDR methods that are only defined in the two-group mixture model.We illustrate our results by applying them to simulated data and data froma microarray experiment.
Accurate diagnosis of disease is of fundamental importance in clinical practice and medical research. Before a medical diagnostic test is routinely used in practice, its ability to distinguish between diseased and nondiseased states must be rigorously assessed through statistical analysis. The receiver operating characteristic (ROC) curve is the most popular used tool for evaluating the discriminatory ability of continuous-outcome diagnostic tests. It has been acknowledged that several factors (e.g., subject-specific characteristics, such as age and/or gender) can affect the test's accuracy be…
A composite likelihood is a non-genuine likelihood function that allows to make inference on limited aspects of a model, such as marginal or conditional distributions. Composite likelihoods are not proper likelihoods and need therefore calibration for their use in inference, from both a frequentist and a Bayesian perspective. The maximizer to the composite likelihood can serve as an estimator and its variance is assessed by means of a suitably defined sandwich matrix. In the Bayesian setting, the composite likelihood can be adjusted by means of magnitude and curvature methods. Magnitude method…
In this paper, we develop a time-varying parameter based seasonally-adjusted Bayesian state-space model for non-stationary time series datasets where both the trend and seasonal components are present and it is the general scenario for most of the real datasets in various scientific disciplines. In spite of removing such terms using some do-and-check procedure to make the data stationary, our model directly fits a dataset and forecasts a number of future observations. For a specific prior construction we have considered, every parameter update is one-dimensional so that we don't need to invert…
We consider the bridge linear regression modeling, which can produce a sparse or non-sparse model. A crucial point in the model building process is the selection of adjusted parameters including a regularization parameter and a tuning parameter in bridge regression models. The choice of the adjusted parameters can be viewed as a model selection and evaluation problem. We propose a model selection criterion for evaluating bridge regression models in terms of Bayesian approach. This selection criterion enables us to select the adjusted parameters objectively. We investigate the effectiveness of …
Meta-analysis is a statistical method used in evidence synthesis for combining, analyzing and summarizing studies that have the same target endpoint and aims to derive a pooled quantitative estimate using fixed and random effects models or network models. Differences among included studies depend on variations in target populations (i.e. heterogeneity) and variations in study quality due to study design and execution (i.e. bias). The risk of bias is usually assessed qualitatively using critical appraisal, and quantitative bias analysis can be used to evaluate the influence of bias on the quant…
Models with intractable likelihood functions arise in areas including network analysis and spatial statistics, especially those involving Gibbs random fields. Posterior parameter es timation in these settings is termed a doubly-intractable problem because both the likelihood function and the posterior distribution are intractable. The comparison of Bayesian models is often based on the statistical evidence, the integral of the un-normalised posterior distribution over the model parameters which is rarely available in closed form. For doubly-intractable models, estimating the evidence adds anot…
A new Bayesian significance test is adjusted for jump detection in a diffusion process. This is an advantageous procedure for temporal data having extreme valued outliers, like financial data, pluvial or tectonic forces records and others.
Modeled along the truncated approach in Panigrahi (2016), selection-adjusted inference in a Bayesian regime is based on a selective posterior. Such a posterior is determined together by a generative model imposed on data and the selection event that enforces a truncation on the assumed law. The effective difference between the selective posterior and the usual Bayesian framework is reflected in the use of a truncated likelihood. The normalizer of the truncated law in the adjusted framework is the probability of the selection event; this is typically intractable and it leads to the computationa…
Implementing Bayesian inference is often computationally challenging in applications involving complex models, and sometimes calculating the likelihood itself is difficult. Synthetic likelihood is one approach for carrying out inference when the likelihood is intractable, but it is straightforward to simulate from the model. The method constructs an approximate likelihood by taking a vector summary statistic as being multivariate normal, with the unknown mean and covariance matrix estimated by simulation for any given parameter value. Our article makes three contributions. The first shows that…
Cluster sampling is common in survey practice, and the corresponding inference has been predominantly design-based. We develop a Bayesian framework for cluster sampling and account for the design effect in the outcome modeling. We consider a two-stage cluster sampling design where the clusters are first selected with probability proportional to cluster size, and then units are randomly sampled inside selected clusters. Challenges arise when the sizes of nonsampled cluster are unknown. We propose nonparametric and parametric Bayesian approaches for predicting the unknown cluster sizes, with thi…
Exponential family models, generalized linear models (GLMs), generalized linear mixed models (GLMMs) and generalized additive models (GAMs) are widely used methods in statistics. However, many scientific applications necessitate constraints be placed on model parameters such as shape and linear inequality constraints. Constrained estimation and inference of parameters remains a pervasive problem in statistics where many methods rely on modifying rigid large sample theory assumptions for inference. We propose a flexible slice sampler Gibbs algorithm for Bayesian GLMMs and GAMs with linear inequ…
In the field of quality of health care measurement, one approach to assessing patient sickness at admission involves a logistic regression of mortality within 30 days of admission on a fairly large number of sickness indicators (on the order of 100) to construct a sickness scale, employing classical variable selection methods to find an ``optimal'' subset of 10--20 indicators. Such ``benefit-only'' methods ignore the considerable differences among the sickness indicators in cost of data collection, an issue that is crucial when admission sickness is used to drive programs (now implemented or u…
Clinical trials usually involve sequential patient entry. When designing a clinical trial, it is often desirable to include a provision for interim analyses of accumulating data with the potential for stopping the trial early. We review Bayesian sequential clinical trial designs based on posterior probabilities, posterior predictive probabilities, and decision-theoretic frameworks. A pertinent question is whether Bayesian sequential designs need to be adjusted for the planning of interim analyses. We answer this question from three perspectives: a frequentist-oriented perspective, a calibrated…
Statistical agencies utilize models to synthesize respondent-level data for release to the public for privacy protection. In this work, we efficiently induce privacy protection into any Bayesian synthesis model by employing a pseudo likelihood that exponentiates each likelihood contribution by an observation record-indexed weight in [0, 1], defined to be inversely proportional to the identification risk for that record. We start with the marginal probability of identification risk for a record, which is composed as the probability that the identity of the record may be disclosed. Our applicati…
The paper addresses joint sparsity selection in the regression coefficient matrix and the error precision (inverse covariance) matrix for high-dimensional multivariate regression models in the Bayesian paradigm. The selected sparsity patterns are crucial to help understand the network of relationships between the predictor and response variables, as well as the conditional relationships among the latter. While Bayesian methods have the advantage of providing natural uncertainty quantification through posterior inclusion probabilities and credible intervals, current Bayesian approaches either r…
Two new Bayesian methods for estimating and predicting in-game home team win probabilities are proposed. The first method has a prior that adjusts as a function of lead differential and time elapsed. The second is an adjusted version of the first, where the adjustment is a linear combination of the Bayesian estimator with a time-weighted pre-game win probability. The proposed methods are compared to existing methods, showing the new methods perform better for both estimation and prediction. The utility is illustrated via an application to the 2016 NCAA Division 1 Championship game.
We consider the problem of constructing an adaptive bridge regression modeling, which is a penalized procedure by imposing different weights to different coefficients in the bridge penalty term. A crucial issue in the modeling process is the choices of adjusted parameters included in the models. We treat the selection of the adjusted parameters as model selection and evaluation problems. In order to select the parameters, model selection criteria are derived from information-theoretic and Bayesian approach. We conduct some numerical studies to investigate the effectiveness of our proposed mode…
Volatility estimation based on high-frequency data is key to accurately measure and control the risk of financial assets. A Lévy process with infinite jump activity and microstructure noise is considered one of the simplest, yet accurate enough, models for financial data at high-frequency. Utilizing this model, we propose a "purposely misspecified" posterior of the volatility obtained by ignoring the jump-component of the process. The misspecified posterior is further corrected by a simple estimate of the location shift and re-scaling of the log likelihood. Our main result establishes a Bernst…
Chain event graphs have been established as a practical Bayesian graphical tool. While bespoke diagnostics have been developed for Bayesian Networks, they have not yet been defined for the statistical class of Chain Event Graph models. Mirroring the methodology of prequential diagnostics for Bayesian Networks, in this paper we design a number of new Bayesian diagnostics for this new class. These can be used to check whether a selected model--presumably the best within the class--captures most of the salient features of the observed process. These are designed to check the continued validity of…
Robust Survival Estimation under Interval Censoring: Expectation-Maximization and Bayesian Accelerated Failure Time Assessment via Simulation and Application
Strategic asset allocation requires an investor to select stocks from a given basket of assets. The perspective of our investor is to maximize risk-adjusted alpha returns relative to a benchmark index. Historical returns are used to provide inputs into an optimization algorithm. Our approach uses Bayesian regularization to not only provide stock selection but also optimal sequential portfolio weights. By incorporating investor preferences with a number of different regularization penalties we extend the approaches of Black (1992) and Puelz (2015). We tailor standard sparse MCMC algorithms to c…
The two-level normal hierarchical model has played an important role in statistical theory and applications. In this paper, we first introduce a general adjusted maximum likelihood method for estimating the unknown variance component of the model and the associated empirical best linear unbiased predictor of the random effects. We then discuss a new idea for selecting prior for the hyperparameters. The prior, called a multi-goal prior, produces Bayesian solutions for hyperparmeters and random effects that match (in the higher order asymptotic sense) the corresponding classical solution in line…
Confidence Adjusted Surprise Measure for Active Resourceful Trials (CA-SMART): A Data-driven Active Learning Framework for Accelerating Material Discovery under Resource Constraints
West Virginia University（西弗吉尼亚大学）；The University of Texas at San Antonio（德克萨斯大学圣安东尼奥分校）
We develop a Bayesian variable selection method, called SVEN, based on a hierarchical Gaussian linear model with priors placed on the regression coefficients as well as on the model space. Sparsity is achieved by using degenerate spike priors on inactive variables, whereas Gaussian slab priors are placed on the coefficients for the important predictors making the posterior probability of a model available in explicit form (up to a normalizing constant). The strong model selection consistency is shown to be attained when the number of predictors grows nearly exponentially with the sample size a…
Powerful ideas recently appeared in the literature are adjusted and combined to design improved samplers for Bayesian exponential random graph models. Different forms of adaptive Metropolis-Hastings proposals (vertical, horizontal and rectangular) are tested and combined with the Delayed rejection (DR) strategy with the aim of reducing the variance of the resulting Markov chain Monte Carlo estimators for a given computational time. In the examples treated in this paper the best combination, namely horizontal adaptation with delayed rejection, leads to a variance reduction that varies between 9…
It is common practice in using regression type models for inferring causal effects, that inferring the correct causal relationship requires extra covariates are included or ``adjusted for''. Without performing this adjustment erroneous causal effects can be inferred. Given this phenomenon it is common practice to include as many covariates as possible, however such advice comes unstuck in the presence of M-bias. M-Bias is a problem in causal inference where the correct estimation of treatment effects requires that certain variables are not adjusted for i.e. are simply neglected from inclusion …
In basketball and hockey, state-of-the-art player value statistics are often variants of Adjusted Plus-Minus (APM). But APM hasn't had the same impact in soccer, since soccer games are low scoring with a low number of substitutions. In soccer, perhaps the most comprehensive player value statistics come from video games, and in particular FIFA. FIFA ratings combine the subjective evaluations of over 9000 scouts, coaches, and season-ticket holders into ratings for over 18,000 players. This paper combines FIFA ratings and APM into a single metric, which we call Augmented APM. The key idea is reca…
DuMouchel and Jones (1994) proposed the Bayesian D criterion by modifying the D-optimality approach to reduce dependence of the selected design on an assumed model. This criterion has been applied to select various single-stratum designs for completely randomized experiments when the number of effects is greater than the sample size. In many industrial experiments, complete randomization is sometimes expensive or infeasible and, hence, designs used for the experiments often have multistratum structures. However, the original Bayesian D criterion was developed under the framework of single-stra…
Feature selection is demanded in many modern scientific research problems that use high-dimensional data. A typical example is to find the most useful genes that are related to a certain disease (eg, cancer) from high-dimensional gene expressions. The expressions of genes have grouping structures, for example, a group of co-regulated genes that have similar biological functions tend to have similar expressions. Many statistical methods have been proposed to take the grouping structure into consideration in feature selection, including group LASSO, supervised group LASSO, and regression on grou…
In this letter, we consider two sets of observations defined as subspace signals embedded in noise and we wish to analyze the distance between these two subspaces. The latter entails evaluating the angles between the subspaces, an issue reminiscent of the well-known Procrustes problem. A Bayesian approach is investigated where the subspaces of interest are considered as random with a joint prior distribution (namely a Bingham distribution), which allows the closeness of the two subspaces to be adjusted. Within this framework, the minimum mean-square distance estimator of both subspaces is form…
Bayesian properties of the signed root likelihood ratio statistic are analysed. Conditions for first-order probability matching are derived by the examination of the Bayesian posterior and frequentist means of this statistic. Second-order matching conditions are shown to arise from matching of the Bayesian posterior and frequentist variances of a mean-adjusted version of the signed root statistic. Conditions for conditional probability matching in ancillary statistic models are derived and discussed.
We discuss Bayesian inference for parameters selected using the data. First, we provide a critical analysis of the existing positions in the literature regarding the correct Bayesian approach under selection. Second, we propose two types of non-informative priors for selection models. These priors may be employed to produce a posterior distribution in the absence of prior information as well as to provide well-calibrated frequentist inference for the selected parameter. We test the proposed priors empirically in several scenarios.
Phylodynamics focuses on the problem of reconstructing past population size dynamics from current genetic samples taken from the population of interest. This technique has been extensively used in many areas of biology, but is particularly useful for studying the spread of quickly evolving infectious diseases agents, e.g.,\ influenza virus. Phylodynamics inference uses a coalescent model that defines a probability density for the genealogy of randomly sampled individuals from the population. When we assume that such a genealogy is known, the coalescent model, equipped with a Gaussian process p…
Selecting informative nodes over large-scale networks becomes increasingly important in many research areas. Most existing methods focus on the local network structure and incur heavy computational costs for the large-scale problem. In this work, we propose a novel prior model for Bayesian network marker selection in the generalized linear model (GLM) framework: the Thresholded Graph Laplacian Gaussian (TGLG) prior, which adopts the graph Laplacian matrix to characterize the conditional dependence between neighboring markers accounting for the global network structure. Under mild conditions, w…
We consider a class of linear ill-posed inverse problems arising from inversion of a compact operator with singular values which decay exponentially to zero. We adopt a Bayesian approach, assuming a Gaussian prior on the unknown function. If the observational noise is assumed to be Gaussian then this prior is conjugate to the likelihood so that the posterior distribution is also Gaussian. We study Bayesian posterior consistency in the small observational noise limit. We assume that the forward operator and the prior and noise covariance operators commute with one another. We show how, for give…
Maddox, et al. (2022) establish a new win probability estimation for college basketball and compared the results with previous methods of Stern (1994), Desphande and Jensen (2016) and Benz (2019). This paper proposes modifications to the approach of Maddox, et al. (2022) for the NBA game and investigates the performance of the model. Enhancements to the model are developed, and the resulting adjusted model is compared with existing methods and to the ESPN counterpart. To illustrate utility, all methods are applied to the November 23, 2019 game between the Chicago Bulls and Charlotte Hornets.
We propose a Bayesian nonparametric matrix clustering approach to analyze the latent heterogeneity structure in the shot selection data collected from professional basketball players in the National Basketball Association (NBA). The proposed method adopts a mixture of finite mixtures framework and fully utilizes the spatial information via a mixture of matrix normal distribution representation. We propose an efficient Markov chain Monte Carlo algorithm for posterior sampling that allows simultaneous inference on both the number of clusters and the cluster configurations. We also establish larg…
We present asymptotic results for the regression-adjusted version of approximate Bayesian computation introduced by Beaumont(2002). We show that for an appropriate choice of the bandwidth, regression adjustment will lead to a posterior that, asymptotically, correctly quantifies uncertainty. Furthermore, for such a choice of bandwidth we can implement an importance sampling algorithm to sample from the posterior whose acceptance probability tends to unity as the data sample size increases. This compares favourably to results for standard approximate Bayesian computation, where the only way to o…
In the literature surrounding Bayesian penalized regression, the two primary choices of prior distribution on the regression coefficients are zero-mean Gaussian and Laplace. While both have been compared numerically and theoretically, there remains little guidance on which to use in real-life situations. We propose two viable solutions to this problem in the form of prior distributions which combine and compromise between Laplace and Gaussian priors, respectively. Through cross-validation the prior which optimizes prediction performance is automatically selected. We then demonstrate the improv…
Bayesian neural networks (BNNs) have developed into useful tools for probabilistic modelling due to recent advances in variational inference enabling large scale BNNs. However, BNNs remain brittle and hard to train, especially: (1) when using deep architectures consisting of many hidden layers and (2) in situations with large weight variances. We use signal propagation theory to quantify these challenges and propose self-stabilising priors. This is achieved by a reformulation of the ELBO to allow the prior to influence network signal propagation. Then, we develop a stabilising prior, where the…
With rapid development of techniques to measure brain activity and structure, statistical methods for analyzing modern brain-imaging play an important role in the advancement of science. Imaging data that measure brain function are usually multivariate time series and are heterogeneous across both imaging sources and subjects, which lead to various statistical and computational challenges. In this paper, we propose a group-based method to cluster a collection of multivariate time series via a Bayesian mixture of smoothing splines. Our method assumes each multivariate time series is a mixture o…
