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Using Copula to Model Dependence When Testing Multiple Hypotheses in DNA Microarray Experiments: A Bayesian Approximation

Author

Listed:
  • Elisa C. J. Maria

    (Departamento de Matemática e Estatística, Faculdade de Ciências Naturais, Matemática e Estatística, Universidade Rovuma, 3100 Nampula, Mozambique)

  • Isabel Salazar

    (Departamento de Producción Animal, Facultad de Veterinaria, Universidad Complutense de Madrid, 28040 Madrid, Spain)

  • Luis Sanz

    (Departamento de Estadística e IO, Facultad de Ciencias Matemáticas, Universidad Complutense de Madrid, 28040 Madrid, Spain)

  • Miguel A. Gómez-Villegas

    (Departamento de Estadística e IO, Facultad de Ciencias Matemáticas, Universidad Complutense de Madrid, 28040 Madrid, Spain)

Abstract

Many experiments require simultaneously testing many hypotheses. This is particularly relevant in the context of DNA microarray experiments, where it is common to analyze many genes to determine which of them are differentially expressed under two conditions. Another important problem in this context is how to model the dependence at the level of gene expression. In this paper, we propose a Bayesian procedure for simultaneously testing multiple hypotheses, modeling the dependence through copula functions, where all available information, both objective and subjective, can be used. The approach has the advantage that it can be used with different dependency structures. Simulated data analysis was performed to examine the performance of the proposed approach. The results show that our procedure captures the dependence appropriately classifying adequately a high percentage of true and false null hypotheses when choosing a prior distribution beta skewed to the right for the initial probability of each null hypothesis, resulting in a very powerful procedure. The procedure is also illustrated with real data.

Suggested Citation

  • Elisa C. J. Maria & Isabel Salazar & Luis Sanz & Miguel A. Gómez-Villegas, 2020. "Using Copula to Model Dependence When Testing Multiple Hypotheses in DNA Microarray Experiments: A Bayesian Approximation," Mathematics, MDPI, vol. 8(9), pages 1-22, September.
    • Handle: RePEc:gam:jmathe:v:8:y:2020:i:9:p:1514-:d:409073
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    References listed on IDEAS

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