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Gene selection for survival data under dependent censoring: a copula-based approach

Author

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  • Emura, Takeshi
  • Chen, Yi-Hau

Abstract

Dependent censoring arises in biomedical studies when the survival outcome of interest is censored by competing risks. In survival data with microarray gene expressions, gene selection based on the univariate Cox regression analyses has been used extensively in medical research, which however, is only valid under the independent censoring assumption. In this paper, we first consider a copula-based framework to investigate the bias caused by dependent censoring on gene selection. Then, we utilize the copula-based dependence model to develop an alternative gene selection procedure. Simulations show that the proposed procedure adjusts for the effect of dependent censoring and thus outperforms the existing method when dependent censoring is indeed present. The non-small-cell lung cancer data is analyzed to demonstrate the usefulness of our proposal. We implemented the proposed method in an R “compound.Cox” package.

Suggested Citation

  • Emura, Takeshi & Chen, Yi-Hau, 2014. "Gene selection for survival data under dependent censoring: a copula-based approach," MPRA Paper 58043, University Library of Munich, Germany.
    • Handle: RePEc:pra:mprapa:58043
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    References listed on IDEAS

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    1. Yi‐Hau Chen, 2010. "Semiparametric marginal regression analysis for dependent competing risks under an assumed copula," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 72(2), pages 235-251, March.
    2. Rivest, Louis-Paul & Wells, Martin T., 2001. "A Martingale Approach to the Copula-Graphic Estimator for the Survival Function under Dependent Censoring," Journal of Multivariate Analysis, Elsevier, vol. 79(1), pages 138-155, October.
    3. Takeshi Emura & Yi-Hau Chen & Hsuan-Yu Chen, 2012. "Survival Prediction Based on Compound Covariate under Cox Proportional Hazard Models," PLOS ONE, Public Library of Science, vol. 7(10), pages 1-12, October.
    4. Emura, Takeshi & Chen, Yi-Hau & Chen, Hsuan-Yu, 2012. "Survival prediction based on compound covariate under cox proportional hazard models," MPRA Paper 41149, University Library of Munich, Germany.
    Full references (including those not matched with items on IDEAS)

    Citations

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    Cited by:

    1. Takeshi Emura & Chi-Hung Pan, 2020. "Parametric likelihood inference and goodness-of-fit for dependently left-truncated data, a copula-based approach," Statistical Papers, Springer, vol. 61(1), pages 479-501, February.
    2. Emura, Takeshi & Shiu, Shau-Kai, 2014. "Estimation and model selection for left-truncated and right-censored lifetime data with application to electric power transformers analysis," MPRA Paper 57528, University Library of Munich, Germany.
    3. Jia-Han Shih & Takeshi Emura, 2018. "Likelihood-based inference for bivariate latent failure time models with competing risks under the generalized FGM copula," Computational Statistics, Springer, vol. 33(3), pages 1293-1323, September.
    4. Emura, Takeshi & Hsu, Jiun-Huang, 2020. "Estimation of the Mann–Whitney effect in the two-sample problem under dependent censoring," Computational Statistics & Data Analysis, Elsevier, vol. 150(C).
    5. T. Emura & K. Murotani, 2015. "An algorithm for estimating survival under a copula-based dependent truncation model," TEST: An Official Journal of the Spanish Society of Statistics and Operations Research, Springer;Sociedad de Estadística e Investigación Operativa, vol. 24(4), pages 734-751, December.
    6. Yicheng Zhou & Zhenzhou Lu & Yan Shi & Kai Cheng, 2019. "The copula-based method for statistical analysis of step-stress accelerated life test with dependent competing failure modes," Journal of Risk and Reliability, , vol. 233(3), pages 401-418, June.
    7. Cécile Chauvel & John O'Quigley, 2017. "Survival model construction guided by fit and predictive strength," Biometrics, The International Biometric Society, vol. 73(2), pages 483-494, June.
    8. Long, Ting-Hsuan & Emura, Takeshi, 2014. "A control chart using copula-based Markov chain models," MPRA Paper 57419, University Library of Munich, Germany.
    9. Jia-Han Shih & Takeshi Emura, 2019. "Bivariate dependence measures and bivariate competing risks models under the generalized FGM copula," Statistical Papers, Springer, vol. 60(4), pages 1101-1118, August.
    10. Takeshi Emura & Weijing Wang, 2016. "Semiparametric inference for an accelerated failure time model with dependent truncation," Annals of the Institute of Statistical Mathematics, Springer;The Institute of Statistical Mathematics, vol. 68(5), pages 1073-1094, October.

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    More about this item

    Keywords

    Bivariate survival distribution; Competing risk; Compound covariate prediction; Cox regression; Cross validation; Frailty; Kendall’s tau;
    All these keywords.

    JEL classification:

    • C12 - Mathematical and Quantitative Methods - - Econometric and Statistical Methods and Methodology: General - - - Hypothesis Testing: General
    • C13 - Mathematical and Quantitative Methods - - Econometric and Statistical Methods and Methodology: General - - - Estimation: General
    • C14 - Mathematical and Quantitative Methods - - Econometric and Statistical Methods and Methodology: General - - - Semiparametric and Nonparametric Methods: General
    • C34 - Mathematical and Quantitative Methods - - Multiple or Simultaneous Equation Models; Multiple Variables - - - Truncated and Censored Models; Switching Regression Models

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