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Robust tests for gene–environment interaction in case-control and case-only designs

Author

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  • Zang, Yong
  • Fung, Wing Kam
  • Cao, Sha
  • Ng, Hon Keung Tony
  • Zhang, Chi

Abstract

The case-control and case-only designs are commonly used to detect the gene–environment (G–E) interaction. In principle, the tests based on these two designs require a pre-specified genetic model to achieve an expected power of detecting the G–E interaction. Unfortunately, for most complex diseases the underlying genetic models are unknown. It is well known that mis-specification of the genetic model can result in a substantial loss of power in the detection of the main genetic effect. However, limited effort has been dedicated to the study of G–E interaction. This issue has been investigated in this article with a conclusion that the genetic model mis-specification can not only undermine the power of detecting G–E interaction in both case-control and case-only designs but also distort the type I error rate in case-control design. To tackle this problem, a class of robust tests, namely MAX3, have been proposed for both the case-control and case-only designs. The proposed tests can well control the type I error rate and yield satisfactory power even when the genetic model is mis-specified. The asymptotic distribution and the p-value formula for MAX3 have also been derived. Comprehensive simulation studies and a real data application on the genome-wide association study (GWAS) have been conducted using these analytical tools and the results demonstrate desirable operating characteristics of the proposed robust tests.

Suggested Citation

  • Zang, Yong & Fung, Wing Kam & Cao, Sha & Ng, Hon Keung Tony & Zhang, Chi, 2019. "Robust tests for gene–environment interaction in case-control and case-only designs," Computational Statistics & Data Analysis, Elsevier, vol. 129(C), pages 79-92.
    • Handle: RePEc:eee:csdana:v:129:y:2019:i:c:p:79-92
    DOI: 10.1016/j.csda.2018.08.014
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    References listed on IDEAS

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    1. Zang, Yong & Fung, Wing Kam & Zheng, Gang, 2010. "Simple Algorithms to Calculate Asymptotic Null Distributions of Robust Tests in Case-Control Genetic Association Studies in R," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 33(i08).
    2. Zang, Yong & Fung, Wing Kam & Zheng, Gang, 2010. "Asymptotic powers for matched trend tests and robust matched trend tests in case-control genetic association studies," Computational Statistics & Data Analysis, Elsevier, vol. 54(1), pages 65-77, January.
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