An additive Cox model for coronary heart disease study

Existing models for coronary heart disease study use a set of common risk factors to predict the survival time of the disease, via the standard Cox regression model. For complex relationships between the survival time and risk factors, the linear regression specification in the existing Cox model is not flexible enough to accounts for such relationships. Also, the risk factors are actually risky only when they fall in some risk ranges. For more flexibility in modelling and characterize the risk factors more accurately, we study a semi-parametric additive Cox model, using basis splines and LASSO technique. The proposed model is evaluated by simulation studies and is used for the analysis of a real data in the Strong Heart Study.     

The LASSO Method for Bilinear Time Series Models

In this article we propose a method called GLLS for the fitting of bilinear time series models. The GLLS procedure is the combination of the LASSO method, the generalized cross-validation method, the least angle regression method, and the stepwise regression method. Compared with the traditional methods such as the repeated residual method and the genetic algorithm, GLLS has the advantage of shrinking the coefficients of the models and saving the computational time. The Monte Carlo simulation studies and a real data example are reported to assess the performance of the proposed GLLS method.     

Sparse optimization for nonconvex group penalized estimation

We consider a linear regression model where there are group structures in covariates. The group LASSO has been proposed for group variable selections. Many nonconvex penalties such as smoothly clipped absolute deviation and minimax concave penalty were extended to group variable selection problems. The group coordinate descent (GCD) algorithm is used popularly for fitting these models. However, the GCD algorithms are hard to be applied to nonconvex group penalties due to computational complexity unless the design matrix is orthogonal. In this paper, we propose an efficient optimization algorithm for nonconvex group penalties by combining the concave convex procedure and the group LASSO algorithm. We also extend the proposed algorithm for generalized linear models. We evaluate numerical efficiency of the proposed algorithm compared to existing GCD algorithms through simulated data and real data sets.     

Quantile regression estimation of partially linear additive models

In this paper, we consider the estimation of partially linear additive quantile regression models where the conditional quantile function comprises a linear parametric component and a nonparametric additive component. We propose a two-step estimation approach: in the first step, we approximate the conditional quantile function using a series estimation method. In the second step, the nonparametric additive component is recovered using either a local polynomial estimator or a weighted Nadaraya–Watson estimator. Both consistency and asymptotic normality of the proposed estimators are established. Particularly, we show that the first-stage estimator for the finite-dimensional parameters attains the semiparametric efficiency bound under homoskedasticity, and that the second-stage estimators for the nonparametric additive component have an oracle efficiency property. Monte Carlo experiments are conducted to assess the finite sample performance of the proposed estimators. An application to a real data set is also illustrated.     

Nonparametric Shrinkage Estimation for Aalen's Additive Hazards Model

Aalen's nonparametric additive model in which the regression coefficients are assumed to be unspecified functions of time is a flexible alternative to Cox's proportional hazards model when the proportionality assumption is in doubt. In this paper, we incorporate a general linear hypothesis into the estimation of the time‐varying regression coefficients. We combine unrestricted least squares estimators and estimators that are restricted by the linear hypothesis and produce James‐Stein‐type shrinkage estimators of the regression coefficients. We develop the asymptotic joint distribution of such restricted and unrestricted estimators and use this to study the relative performance of the proposed estimators via their integrated asymptotic distributional risks. We conduct Monte Carlo simulations to examine the relative performance of the estimators in terms of their integrated mean square errors. We also compare the performance of the proposed estimators with a recently devised LASSO estimator as well as with ridge‐type estimators both via simulations and data on the survival of primary billiary cirhosis patients.     

Partially Linear Additive Models with Unknown Link Functions

In this paper, we consider partially linear additive models with an unknown link function, which include single‐index models and additive models as special cases. We use polynomial spline method for estimating the unknown link function as well as the component functions in the additive part. We establish that convergence rates for all nonparametric functions are the same as in one‐dimensional nonparametric regression. For a faster rate of the parametric part, we need to define appropriate ‘projection’ that is more complicated than that defined previously for partially linear additive models. Compared to previous approaches, a distinct advantage of our estimation approach in implementation is that estimation directly reduces estimation in the single‐index model and can thus deal with much larger dimensional problems than previous approaches for additive models with unknown link functions. Simulations and a real dataset are used to illustrate the proposed model.     

Nonparametric Independence Screening in Sparse Ultra-High Dimensional Additive Models

A variable screening procedure via correlation learning was proposed in Fan and Lv (2008) to reduce dimensionality in sparse ultra-high dimensional models. Even when the true model is linear, the marginal regression can be highly nonlinear. To address this issue, we further extend the correlation learning to marginal nonparametric learning. Our nonparametric independence screening is called NIS, a specific member of the sure independence screening. Several closely related variable screening procedures are proposed. Under general nonparametric models, it is shown that under some mild technical conditions, the proposed independence screening methods enjoy a sure screening property. The extent to which the dimensionality can be reduced by independence screening is also explicitly quantified. As a methodological extension, a data-driven thresholding and an iterative nonparametric independence screening (INIS) are also proposed to enhance the finite sample performance for fitting sparse additive models. The simulation results and a real data analysis demonstrate that the proposed procedure works well with moderate sample size and large dimension and performs better than competing methods.     

Estimation and Variable Selection for Semiparametric Additive Partial Linear Models (SS-09-140)

Semiparametric additive partial linear models, containing both linear and nonlinear additive components, are more flexible compared to linear models, and they are more efficient compared to general nonparametric regression models because they reduce the problem known as "curse of dimensionality". In this paper, we propose a new estimation approach for these models, in which we use polynomial splines to approximate the additive nonparametric components and we derive the asymptotic normality for the resulting estimators of the parameters. We also develop a variable selection procedure to identify significant linear components using the smoothly clipped absolute deviation penalty (SCAD), and we show that the SCAD-based estimators of non-zero linear components have an oracle property. Simulations are performed to examine the performance of our approach as compared to several other variable selection methods such as the Bayesian Information Criterion and Least Absolute Shrinkage and Selection Operator (LASSO). The proposed approach is also applied to real data from a nutritional epidemiology study, in which we explore the relationship between plasma beta-carotene levels and personal characteristics (e.g., age, gender, body mass index (BMI), etc.) as well as dietary factors (e.g., alcohol consumption, smoking status, intake of cholesterol, etc.).     

Oracle model selection for correlated data via residuals

This paper concerns model selection for autoregressive time series when the observations are contaminated with trend. We propose an adaptive least absolute shrinkage and selection operator (LASSO) type model selection method, in which the trend is estimated by B-splines, the detrended residuals are calculated, and then the residuals are used as if they were observations to optimize an adaptive LASSO type objective function. The oracle properties of such an adaptive LASSO model selection procedure are established; that is, the proposed method can identify the true model with probability approaching one as the sample size increases, and the asymptotic properties of estimators are not affected by the replacement of observations with detrended residuals. The intensive simulation studies of several constrained and unconstrained autoregressive models also confirm the theoretical results. The method is illustrated by two time series data sets, the annual U.S. tobacco production and annual tree ring width measurements.     

Inference in generalized additive mixed modelsby using smoothing splines

Generalized additive mixed models are proposed for overdispersed and correlated data, which arise frequently in studies involving clustered, hierarchical and spatial designs. This class of models allows flexible functional dependence of an outcome variable on covariates by using nonparametric regression, while accounting for correlation between observations by using random effects. We estimate nonparametric functions by using smoothing splines and jointly estimate smoothing parameters and variance components by using marginal quasi-likelihood. Because numerical integration is often required by maximizing the objective functions, double penalized quasi-likelihood is proposed to make approximate inference. Frequentist and Bayesian inferences are compared. A key feature of the method proposed is that it allows us to make systematic inference on all model components within a unified parametric mixed model framework and can be easily implemented by fitting a working generalized linear mixed model by using existing statistical software. A bias correction procedure is also proposed to improve the performance of double penalized quasi-likelihood for sparse data. We illustrate the method with an application to infectious disease data and we evaluate its performance through simulation.     

Bayesian spectral analysis models for quantile regression with Dirichlet process mixtures

This paper presents a Bayesian analysis of partially linear additive models for quantile regression. We develop a semiparametric Bayesian approach to quantile regression models using a spectral representation of the nonparametric regression functions and the Dirichlet process (DP) mixture for error distribution. We also consider Bayesian variable selection procedures for both parametric and nonparametric components in a partially linear additive model structure based on the Bayesian shrinkage priors via a stochastic search algorithm. Based on the proposed Bayesian semiparametric additive quantile regression model referred to as BSAQ, the Bayesian inference is considered for estimation and model selection. For the posterior computation, we design a simple and efficient Gibbs sampler based on a location-scale mixture of exponential and normal distributions for an asymmetric Laplace distribution, which facilitates the commonly used collapsed Gibbs sampling algorithms for the DP mixture models. Additionally, we discuss the asymptotic property of the sempiparametric quantile regression model in terms of consistency of posterior distribution. Simulation studies and real data application examples illustrate the proposed method and compare it with Bayesian quantile regression methods in the literature.     

Sparse estimation and inference for censored median regression

Censored median regression has proved useful for analyzing survival data in complicated situations, say, when the variance is heteroscedastic or the data contain outliers. In this paper, we study the sparse estimation for censored median regression models, which is an important problem for high dimensional survival data analysis. In particular, a new procedure is proposed to minimize an inverse-censoring-probability weighted least absolute deviation loss subject to the adaptive LASSO penalty and result in a sparse and robust median estimator. We show that, with a proper choice of the tuning parameter, the procedure can identify the underlying sparse model consistently and has desired large-sample properties including root-n consistency and the asymptotic normality. The procedure also enjoys great advantages in computation, since its entire solution path can be obtained efficiently. Furthermore, we propose a resampling method to estimate the variance of the estimator. The performance of the procedure is illustrated by extensive simulations and two real data applications including one microarray gene expression survival data.     

Sparse additive models

Summary.  We present a new class of methods for high dimensional non-parametric regression and classification called sparse additive models. Our methods combine ideas from sparse linear modelling and additive non-parametric regression. We derive an algorithm for fitting the models that is practical and effective even when the number of covariates is larger than the sample size. Sparse additive models are essentially a functional version of the grouped lasso of Yuan and Lin. They are also closely related to the COSSO model of Lin and Zhang but decouple smoothing and sparsity, enabling the use of arbitrary non-parametric smoothers. We give an analysis of the theoretical properties of sparse additive models and present empirical results on synthetic and real data, showing that they can be effective in fitting sparse non-parametric models in high dimensional data.     

On asymptotic properties of Bayesian partially linear models

In this paper, we present large sample properties of a partially linear model from the Bayesian perspective, in which responses are explained by the semiparametric regression model with the additive form of the linear component and the nonparametric component. For this purpose, we investigate asymptotic behaviors of posterior distributions in terms of consistency. Specifically, we deal with a specific Bayesian partially linear regression model with additive noises in which the nonparametric component is modeled using Gaussian process priors. Under the Bayesian partially linear model using Gaussian process priors, we focus on consistency of posterior distribution and consistency of the Bayes factor, and extend these results to generalized additive regression models and study their asymptotic properties. In addition we illustrate the asymptotic properties based on empirical analysis through simulation studies.     

General partially linear additive transformation model with right-censored data

We propose a class of general partially linear additive transformation models (GPLATM) with right-censored survival data in this work. The class of models are flexible enough to cover many commonly used parametric and nonparametric survival analysis models as its special cases. Based on the B spline interpolation technique, we estimate the unknown regression parameters and functions by the maximum marginal likelihood estimation method. One important feature of the estimation procedure is that it does not need the baseline and censoring cumulative density distributions. Some numerical studies illustrate that this procedure can work very well for the moderate sample size.     

Fused least absolute shrinkage and selection operator for credit scoring

Credit scoring can be defined as the set of statistical models and techniques that help financial institutions in their credit decision makings. In this paper, we consider a coarse classification method based on fused least absolute shrinkage and selection operator (LASSO) penalization. By adopting fused LASSO, one can deal continuous as well as discrete variables in a unified framework. For computational efficiency, we develop a penalization path algorithm. Through numerical examples, we compare the performances of fused LASSO and LASSO with dummy variable coding.     

Empirical Likelihood for Nonparametric Components in Additive Partially Linear Models

Empirical likelihood-based inference for the nonparametric components in additive partially linear models is investigated. An empirical likelihood approach to construct the confidence intervals of the nonparametric components is proposed when the linear covariate is measured with and without errors. We show that the proposed empirical log-likelihood ratio is asymptotically standard chi-squared without requiring the undersmoothing of the nonparametric components. Then, it can be directly used to construct the confidence intervals for the nonparametric functions. A simulation study indicates that, compared with a normal approximation-based approach, the proposed method works better in terms of coverage probabilities and widths of the pointwise confidence intervals.     

Boosting techniques for nonlinear time series models

Many of the popular nonlinear time series models require a priori the choice of parametric functions which are assumed to be appropriate in specific applications. This approach is mainly used in financial applications, when sufficient knowledge is available about the nonlinear structure between the covariates and the response. One principal strategy to investigate a broader class on nonlinear time series is the Nonlinear Additive AutoRegressive (NAAR) model. The NAAR model estimates the lags of a time series as flexible functions in order to detect non-monotone relationships between current and past observations. We consider linear and additive models for identifying nonlinear relationships. A componentwise boosting algorithm is applied for simultaneous model fitting, variable selection, and model choice. Thus, with the application of boosting for fitting potentially nonlinear models we address the major issues in time series modelling: lag selection and nonlinearity. By means of simulation we compare boosting to alternative nonparametric methods. Boosting shows a strong overall performance in terms of precise estimations of highly nonlinear lag functions. The forecasting potential of boosting is examined on the German industrial production (IP); to improve the model’s forecasting quality we include additional exogenous variables. Thus we address the second major aspect in this paper which concerns the issue of high dimensionality in models. Allowing additional inputs in the model extends the NAAR model to a broader class of models, namely the NAARX model. We show that boosting can cope with large models which have many covariates compared to the number of observations.     

Robust signed-rank estimation and variable selection for semi-parametric additive partial linear models

A fully nonparametric model may not perform well or when the researcher wants to use a parametric model but the functional form with respect to a subset of the regressors or the density of the errors is not known. This becomes even more challenging when the data contain gross outliers or unusual observations. However, in practice the true covariates are not known in advance, nor is the smoothness of the functional form. A robust model selection approach through which we can choose the relevant covariates components and estimate the smoothing function may represent an appealing tool to the solution. A weighted signed-rank estimation and variable selection under the adaptive lasso for semi-parametric partial additive models is considered in this paper. B-spline is used to estimate the unknown additive nonparametric function. It is shown that despite using B-spline to estimate the unknown additive nonparametric function, the proposed estimator has an oracle property. The robustness of the weighted signed-rank approach for data with heavy-tail, contaminated errors, and data containing high-leverage points are validated via finite sample simulations. A practical application to an economic study is provided using an updated Canadian household gasoline consumption data.     

Shrinkage and variable selection by polytopes

Constrained estimators that enforce variable selection and grouping of highly correlated data have been shown to be successful in finding sparse representations and obtaining good performance in prediction. We consider polytopes as a general class of compact and convex constraint regions. Well-established procedures like LASSO (Tibshirani, 1996) or OSCAR (Bondell and Reich, 2008) are shown to be based on specific subclasses of polytopes. The general framework of polytopes can be used to investigate the geometric structure that underlies these procedures. Moreover, we propose a specifically designed class of polytopes that enforces variable selection and grouping. Simulation studies and an application illustrate the usefulness of the proposed method.