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Electronic Journal of Statistics

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https://www.readbyqxmd.com/read/30416643/high-dimensional-inference-for-personalized-treatment-decision
#1
X Jessie Jeng, Wenbin Lu, Huimin Peng
Recent development in statistical methodology for personalized treatment decision has utilized high-dimensional regression to take into account a large number of patients' covariates and described personalized treatment decision through interactions between treatment and covariates. While a subset of interaction terms can be obtained by existing variable selection methods to indicate relevant covariates for making treatment decision, there often lacks statistical interpretation of the results. This paper proposes an asymptotically unbiased estimator based on Lasso solution for the interaction coefficients...
2018: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/30100949/dimension-reduction-and-estimation-in-the-secondary-analysis-of-case-control-studies
#2
Liang Liang, Raymond Carroll, Yanyuan Ma
Studying the relationship between covariates based on retrospective data is the main purpose of secondary analysis, an area of increasing interest. We examine the secondary analysis problem when multiple covariates are available, while only a regression mean model is specified. Despite the completely parametric modeling of the regression mean function, the case-control nature of the data requires special treatment and semi-parametric efficient estimation generates various nonparametric estimation problems with multivariate covariates...
2018: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/30057658/statistical-properties-of-simple-random-effects-models-for-genetic-heritability
#3
David Steinsaltz, Andrew Dahl, Kenneth W Wachter
Random-effects models are a popular tool for analysing total narrow-sense heritability for quantitative phenotypes, on the basis of large-scale SNP data. Recently, there have been disputes over the validity of conclusions that may be drawn from such analysis. We derive some of the fundamental statistical properties of heritability estimates arising from these models, showing that the bias will generally be small. We show that that the score function may be manipulated into a form that facilitates intelligible interpretations of the results...
2018: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/29675120/supervised-multiway-factorization
#4
Eric F Lock, Gen Li
We describe a probabilistic PARAFAC/CANDECOMP (CP) factorization for multiway (i.e., tensor) data that incorporates auxiliary covariates, SupCP . SupCP generalizes the supervised singular value decomposition (SupSVD) for vector-valued observations, to allow for observations that have the form of a matrix or higher-order array. Such data are increasingly encountered in biomedical research and other fields. We use a novel likelihood-based latent variable representation of the CP factorization, in which the latent variables are informed by additional covariates...
2018: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/29403568/tree-based-weighted-learning-for-estimating-individualized-treatment-rules-with-censored-data
#5
Yifan Cui, Ruoqing Zhu, Michael Kosorok
Estimating individualized treatment rules is a central task for personalized medicine. [23] and [22] proposed outcome weighted learning to estimate individualized treatment rules directly through maximizing the expected outcome without modeling the response directly. In this paper, we extend the outcome weighted learning to right censored survival data without requiring either inverse probability of censoring weighting or semiparametric modeling of the censoring and failure times as done in [26]. To accomplish this, we take advantage of the tree based approach proposed in [28] to nonparametrically impute the survival time in two different ways...
2017: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/29104711/siam-a-hybrid-of-single-index-models-and-additive-models
#6
Shujie Ma, Heng Lian, Hua Liang, Raymond J Carroll
While popular, single index models and additive models have potential limitations, a fact that leads us to propose SiAM, a novel hybrid combination of these two models. We first address model identifiability under general assumptions. The result is of independent interest. We then develop an estimation procedure by using splines to approximate unknown functions and establish the asymptotic properties of the resulting estimators. Furthermore, we suggest a two-step procedure for establishing confidence bands for the nonparametric additive functions...
2017: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28983388/estimation-and-inference-of-error-prone-covariate-effect-in-the-presence-of-confounding-variables
#7
Jianxuan Liu, Yanyuan Ma, Liping Zhu, Raymond J Carroll
We introduce a general single index semiparametric measurement error model for the case that the main covariate of interest is measured with error and modeled parametrically, and where there are many other variables also important to the modeling. We propose a semiparametric bias-correction approach to estimate the effect of the covariate of interest. The resultant estimators are shown to be root-n consistent, asymptotically normal and locally efficient. Comprehensive simulations and an analysis of an empirical data set are performed to demonstrate the finite sample performance and the bias reduction of the locally efficient estimators...
2017: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28959371/semiparametric-single-index-model-for-estimating-optimal-individualized-treatment-strategy
#8
Rui Song, Shikai Luo, Donglin Zeng, Hao Helen Zhang, Wenbin Lu, Zhiguo Li
Different from the standard treatment discovery framework which is used for finding single treatments for a homogenous group of patients, personalized medicine involves finding therapies that are tailored to each individual in a heterogeneous group. In this paper, we propose a new semiparametric additive single-index model for estimating individualized treatment strategy. The model assumes a flexible and nonparametric link function for the interaction between treatment and predictive covariates. We estimate the rule via monotone B-splines and establish the asymptotic properties of the estimators...
2017: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28845209/nearly-assumptionless-screening-for-the-mutually-exciting-multivariate-hawkes-process
#9
Shizhe Chen, Daniela Witten, Ali Shojaie
We consider the task of learning the structure of the graph underlying a mutually-exciting multivariate Hawkes process in the high-dimensional setting. We propose a simple and computationally inexpensive edge screening approach. Under a subset of the assumptions required for penalized estimation approaches to recover the graph, this edge screening approach has the sure screening property: with high probability, the screened edge set is a superset of the true edge set. Furthermore, the screened edge set is relatively small...
2017: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/29707100/scalable-bayesian-nonparametric-measures-for-exploring-pairwise-dependence-via-dirichlet-process-mixtures
#10
Sarah Filippi, Chris C Holmes, Luis E Nieto-Barajas
In this article we propose novel Bayesian nonparametric methods using Dirichlet Process Mixture (DPM) models for detecting pairwise dependence between random variables while accounting for uncertainty in the form of the underlying distributions. A key criteria is that the procedures should scale to large data sets. In this regard we find that the formal calculation of the Bayes factor for a dependent-vs.-independent DPM joint probability measure is not feasible computationally. To address this we present Bayesian diagnostic measures for characterising evidence against a "null model" of pairwise independence...
November 16, 2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/29623150/scalable-bayesian-nonparametric-regression-via-a-plackett-luce-model-for-conditional-ranks
#11
Tristan Gray-Davies, Chris C Holmes, François Caron
We present a novel Bayesian nonparametric regression model for covariates X and continuous response variable Y ∈ ℝ. The model is parametrized in terms of marginal distributions for Y and X and a regression function which tunes the stochastic ordering of the conditional distributions F ( y|x ). By adopting an approximate composite likelihood approach, we show that the resulting posterior inference can be decoupled for the separate components of the model. This procedure can scale to very large datasets and allows for the use of standard, existing, software from Bayesian nonparametric density estimation and Plackett-Luce ranking estimation to be applied...
July 18, 2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28989558/designing-penalty-functions-in-high-dimensional-problems-the-role-of-tuning-parameters
#12
Ting-Huei Chen, Wei Sun, Jason P Fine
Various forms of penalty functions have been developed for regularized estimation and variable selection. Screening approaches are often used to reduce the number of covariate before penalized estimation. However, in certain problems, the number of covariates remains large after screening. For example, in genome-wide association (GWA) studies, the purpose is to identify Single Nucleotide Polymorphisms (SNPs) that are associated with certain traits, and typically there are millions of SNPs and thousands of samples...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28966702/estimation-of-multiple-networks-in-gaussian-mixture-models
#13
Chen Gao, Yunzhang Zhu, Xiaotong Shen, Wei Pan
We aim to estimate multiple networks in the presence of sample heterogeneity, where the independent samples (i.e. observations) may come from different and unknown populations or distributions. Specifically, we consider penalized estimation of multiple precision matrices in the framework of a Gaussian mixture model. A major innovation is to take advantage of the commonalities across the multiple precision matrices through possibly nonconvex fusion regularization, which for example makes it possible to achieve simultaneous discovery of unknown disease subtypes and detection of differential gene (dys)regulations in functional genomics...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28781717/robust-learning-for-optimal-treatment-decision-with-np-dimensionality
#14
Chengchun Shi, Rui Song, Wenbin Lu
In order to identify important variables that are involved in making optimal treatment decision, Lu, Zhang and Zeng (2013) proposed a penalized least squared regression framework for a fixed number of predictors, which is robust against the misspecification of the conditional mean model. Two problems arise: (i) in a world of explosively big data, effective methods are needed to handle ultra-high dimensional data set, for example, with the dimension of predictors is of the non-polynomial (NP) order of the sample size; (ii) both the propensity score and conditional mean models need to be estimated from data under NP dimensionality...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28638498/estimation-of-high-dimensional-graphical-models-using-regularized-score-matching
#15
Lina Lin, Mathias Drton, Ali Shojaie
Graphical models are widely used to model stochastic dependences among large collections of variables. We introduce a new method of estimating undirected conditional independence graphs based on the score matching loss, introduced by Hyvärinen (2005), and subsequently extended in Hyvärinen (2007). The regularized score matching method we propose applies to settings with continuous observations and allows for computationally efficient treatment of possibly non-Gaussian exponential family models. In the well-explored Gaussian setting, regularized score matching avoids issues of asymmetry that arise when applying the technique of neighborhood selection, and compared to existing methods that directly yield symmetric estimates, the score matching approach has the advantage that the considered loss is quadratic and gives piecewise linear solution paths under ℓ1 regularization...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28503251/on-convex-least-squares-estimation-when-the-truth-is-linear
#16
Yining Chen, Jon A Wellner
We prove that the convex least squares estimator (LSE) attains a n(-1/2) pointwise rate of convergence in any region where the truth is linear. In addition, the asymptotic distribution can be characterized by a modified invelope process. Analogous results hold when one uses the derivative of the convex LSE to perform derivative estimation. These asymptotic results facilitate a new consistent testing procedure on the linearity against a convex alternative. Moreover, we show that the convex LSE adapts to the optimal rate at the boundary points of the region where the truth is linear, up to a log-log factor...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/28473876/joint-estimation-of-precision-matrices-in-heterogeneous-populations
#17
Takumi Saegusa, Ali Shojaie
We introduce a general framework for estimation of inverse covariance, or precision, matrices from heterogeneous populations. The proposed framework uses a Laplacian shrinkage penalty to encourage similarity among estimates from disparate, but related, subpopulations, while allowing for differences among matrices. We propose an efficient alternating direction method of multipliers (ADMM) algorithm for parameter estimation, as well as its extension for faster computation in high dimensions by thresholding the empirical covariance matrix to identify the joint block diagonal structure in the estimated precision matrices...
2016: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/27617051/statistical-properties-of-convex-clustering
#18
Kean Ming Tan, Daniela Witten
In this manuscript, we study the statistical properties of convex clustering. We establish that convex clustering is closely related to single linkage hierarchical clustering and k-means clustering. In addition, we derive the range of the tuning parameter for convex clustering that yields a non-trivial solution. We also provide an unbiased estimator of the degrees of freedom, and provide a finite sample bound for the prediction error for convex clustering. We compare convex clustering to some traditional clustering methods in simulation studies...
2015: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/27134694/a-test-of-homogeneity-for-age-dependent-branching-processes-with-immigration
#19
Ollivier Hyrien, Nikolay M Yanev, Craig T Jordan
We propose a novel procedure to test whether the immigration process of a discretely observed age-dependent branching process with immigration is time-homogeneous. The construction of the test is motivated by the behavior of the coefficient of variation of the population size. When immigration is time-homogeneous, we find that this coefficient converges to a constant, whereas when immigration is time-inhomogeneous we find that it is time-dependent, at least transiently. Thus, we test the assumption that the immigration process is time-homogeneous by verifying that the sample coefficient of variation does not vary significantly over time...
2015: Electronic Journal of Statistics
https://www.readbyqxmd.com/read/26279737/computationally-efficient-confidence-intervals-for-cross-validated-area-under-the-roc-curve-estimates
#20
Erin LeDell, Maya Petersen, Mark van der Laan
In binary classification problems, the area under the ROC curve (AUC) is commonly used to evaluate the performance of a prediction model. Often, it is combined with cross-validation in order to assess how the results will generalize to an independent data set. In order to evaluate the quality of an estimate for cross-validated AUC, we obtain an estimate of its variance. For massive data sets, the process of generating a single performance estimate can be computationally expensive. Additionally, when using a complex prediction method, the process of cross-validating a predictive model on even a relatively small data set can still require a large amount of computation time...
2015: Electronic Journal of Statistics
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