Literature DB >> 23956500

A Tutorial on Rank-based Coefficient Estimation for Censored Data in Small- and Large-Scale Problems.

Matthias Chung1, Qi Long, Brent A Johnson.   

Abstract

The analysis of survival endpoints subject to right-censoring is an important research area in statistics, particularly among econometricians and biostatisticians. The two most popular semiparametric models are the proportional hazards model and the accelerated failure time (AFT) model. Rank-based estimation in the AFT model is computationally challenging due to optimization of a non-smooth loss function. Previous work has shown that rank-based estimators may be written as solutions to linear programming (LP) problems. However, the size of the LP problem is O(n2 + p) subject to n2 linear constraints, where n denotes sample size and p denotes the dimension of parameters. As n and/or p increases, the feasibility of such solution in practice becomes questionable. Among data mining and statistical learning enthusiasts, there is interest in extending ordinary regression coefficient estimators for low-dimensions into high-dimensional data mining tools through regularization. Applying this recipe to rank-based coefficient estimators leads to formidable optimization problems which may be avoided through smooth approximations to non-smooth functions. We review smooth approximations and quasi-Newton methods for rank-based estimation in AFT models. The computational cost of our method is substantially smaller than the corresponding LP problem and can be applied to small- or large-scale problems similarly. The algorithm described here allows one to couple rank-based estimation for censored data with virtually any regularization and is exemplified through four case studies.

Entities:  

Keywords:  Accelerated failure time model; Ill-posed problems; Regularization; Survival analysis

Year:  2013        PMID: 23956500      PMCID: PMC3742389          DOI: 10.1007/s11222-012-9333-9

Source DB:  PubMed          Journal:  Stat Comput        ISSN: 0960-3174            Impact factor:   2.559


  11 in total

1.  A GENERALIZED WILCOXON TEST FOR COMPARING ARBITRARILY SINGLY-CENSORED SAMPLES.

Authors:  E A GEHAN
Journal:  Biometrika       Date:  1965-06       Impact factor: 2.445

2.  Penalized Estimating Functions and Variable Selection in Semiparametric Regression Models.

Authors:  Brent A Johnson; D Y Lin; Donglin Zeng
Journal:  J Am Stat Assoc       Date:  2008-06-01       Impact factor: 5.033

3.  Induced smoothing for rank regression with censored survival times.

Authors:  B M Brown; You-Gan Wang
Journal:  Stat Med       Date:  2007-02-20       Impact factor: 2.373

4.  Regularized estimation in the accelerated failure time model with high-dimensional covariates.

Authors:  Jian Huang; Shuangge Ma; Huiliang Xie
Journal:  Biometrics       Date:  2006-09       Impact factor: 2.571

5.  Adaptive regularization using the entire solution surface.

Authors:  S Wu; X Shen; C J Geyer
Journal:  Biometrika       Date:  2009-09       Impact factor: 2.445

6.  Rank-based estimation in the {ell}1-regularized partly linear model for censored outcomes with application to integrated analyses of clinical predictors and gene expression data.

Authors:  Brent A Johnson
Journal:  Biostatistics       Date:  2009-06-24       Impact factor: 5.899

7.  On path restoration for censored outcomes.

Authors:  Brent A Johnson; Qi Long; Matthias Chung
Journal:  Biometrics       Date:  2011-04-02       Impact factor: 2.571

8.  Rank-based variable selection with censored data.

Authors:  Jinfeng Xu; Chenlei Leng; Zhiliang Ying
Journal:  Stat Comput       Date:  2010-04-01       Impact factor: 2.559

9.  Prognosis in primary biliary cirrhosis: model for decision making.

Authors:  E R Dickson; P M Grambsch; T R Fleming; L D Fisher; A Langworthy
Journal:  Hepatology       Date:  1989-07       Impact factor: 17.425

10.  Regularized estimation for the accelerated failure time model.

Authors:  T Cai; J Huang; L Tian
Journal:  Biometrics       Date:  2009-06       Impact factor: 2.571

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  5 in total

1.  Lasso regularization for left-censored Gaussian outcome and high-dimensional predictors.

Authors:  Perrine Soret; Marta Avalos; Linda Wittkop; Daniel Commenges; Rodolphe Thiébaut
Journal:  BMC Med Res Methodol       Date:  2018-12-04       Impact factor: 4.615

2.  Identification of microbiota dynamics using robust parameter estimation methods.

Authors:  Matthias Chung; Justin Krueger; Mihai Pop
Journal:  Math Biosci       Date:  2017-10-10       Impact factor: 2.144

3.  Hierarchical Feature Selection Incorporating Known and Novel Biological Information: Identifying Genomic Features Related to Prostate Cancer Recurrence.

Authors:  Yize Zhao; Matthias Chung; Brent A Johnson; Carlos S Moreno; Qi Long
Journal:  J Am Stat Assoc       Date:  2017-01-04       Impact factor: 5.033

Review 4.  A selective review of robust variable selection with applications in bioinformatics.

Authors:  Cen Wu; Shuangge Ma
Journal:  Brief Bioinform       Date:  2014-12-05       Impact factor: 13.994

5.  Semiparametric Accelerated Failure Time Model as a New Approach for Health Science Studies.

Authors:  Mostafa Karimi; Ardalan Shariat
Journal:  Iran J Public Health       Date:  2017-11       Impact factor: 1.429

  5 in total

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