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Variable selection and prediction in biased samples with censored outcomes

Author

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  • Ying Wu

    (Nankai University)

  • Richard J. Cook

    (University of Waterloo)

Abstract

With the increasing availability of large prospective disease registries, scientists studying the course of chronic conditions often have access to multiple data sources, with each source generated based on its own entry conditions. The different entry conditions of the various registries may be explicitly based on the response process of interest, in which case the statistical analysis must recognize the unique truncation schemes. Moreover, intermittent assessment of individuals in the registries can lead to interval-censored times of interest. We consider the problem of selecting important prognostic biomarkers from a large set of candidates when the event times of interest are truncated and right- or interval-censored. Methods for penalized regression are adapted to handle truncation via a Turnbull-type complete data likelihood. An expectation–maximization algorithm is described which is empirically shown to perform well. Inverse probability weights are used to adjust for the selection bias when assessing predictive accuracy based on individuals whose event status is known at a time of interest. Application to the motivating study of the development of psoriatic arthritis in patients with psoriasis in both the psoriasis cohort and the psoriatic arthritis cohort illustrates the procedure.

Suggested Citation

  • Ying Wu & Richard J. Cook, 2018. "Variable selection and prediction in biased samples with censored outcomes," Lifetime Data Analysis: An International Journal Devoted to Statistical Methods and Applications for Time-to-Event Data, Springer, vol. 24(1), pages 72-93, January.
    • Handle: RePEc:spr:lifeda:v:24:y:2018:i:1:d:10.1007_s10985-017-9392-5
    DOI: 10.1007/s10985-017-9392-5
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    References listed on IDEAS

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    1. Zou, Hui, 2006. "The Adaptive Lasso and Its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 101, pages 1418-1429, December.
    2. Lajmi Lakhal Chaieb & Louis-Paul Rivest & Belkacem Abdous, 2006. "Estimating survival under a dependent truncation," Biometrika, Biometrika Trust, vol. 93(3), pages 655-669, September.
    3. Hao Helen Zhang & Wenbin Lu, 2007. "Adaptive Lasso for Cox's proportional hazards model," Biometrika, Biometrika Trust, vol. 94(3), pages 691-703.
    4. Andriy Derkach & Jerald F. Lawless & Lei Sun, 2015. "Score tests for association under response-dependent sampling designs for expensive covariates," Biometrika, Biometrika Trust, vol. 102(4), pages 988-994.
    5. Martin, Emily C. & Betensky, Rebecca A., 2005. "Testing Quasi-Independence of Failure and Truncation Times via Conditional Kendall's Tau," Journal of the American Statistical Association, American Statistical Association, vol. 100, pages 484-492, June.
    6. Ying Wu & Richard J. Cook, 2015. "Penalized regression for interval‐censored times of disease progression: Selection of HLA markers in psoriatic arthritis," Biometrics, The International Biometric Society, vol. 71(3), pages 782-791, September.
    7. Fan J. & Li R., 2001. "Variable Selection via Nonconcave Penalized Likelihood and its Oracle Properties," Journal of the American Statistical Association, American Statistical Association, vol. 96, pages 1348-1360, December.
    8. Patrick J. Heagerty & Thomas Lumley & Margaret S. Pepe, 2000. "Time-Dependent ROC Curves for Censored Survival Data and a Diagnostic Marker," Biometrics, The International Biometric Society, vol. 56(2), pages 337-344, June.
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    Cited by:

    1. Douglas E. Schaubel & Bin Nan, 2018. "Special issue dedicated to Jack Kalbfleisch," Lifetime Data Analysis: An International Journal Devoted to Statistical Methods and Applications for Time-to-Event Data, Springer, vol. 24(1), pages 1-2, January.

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