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Distributions associated with simultaneous multiple hypothesis testing

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  • Chang Yu

    (Vanderbilt University Medical Center)

  • Daniel Zelterman

    (Yale University)

Abstract

We develop the distribution for the number of hypotheses found to be statistically significant using the rule from Simes (Biometrika 73: 751–754, 1986) for controlling the family-wise error rate (FWER). We find the distribution of the number of statistically significant p-values under the null hypothesis and show this follows a normal distribution under the alternative. We propose a parametric distribution ΨI(·) to model the marginal distribution of p-values sampled from a mixture of null uniform and non-uniform distributions under different alternative hypotheses. The ΨI distribution is useful when there are many different alternative hypotheses and these are not individually well understood. We fit ΨI to data from three cancer studies and use it to illustrate the distribution of the number of notable hypotheses observed in these examples. We model dependence in sampled p-values using a latent variable. These methods can be combined to illustrate a power analysis in planning a larger study on the basis of a smaller pilot experiment.

Suggested Citation

  • Chang Yu & Daniel Zelterman, 2020. "Distributions associated with simultaneous multiple hypothesis testing," Journal of Statistical Distributions and Applications, Springer, vol. 7(1), pages 1-17, December.
  • Handle: RePEc:spr:jstada:v:7:y:2020:i:1:d:10.1186_s40488-020-00109-6
    DOI: 10.1186/s40488-020-00109-6
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    References listed on IDEAS

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    1. Art B. Owen, 2005. "Variance of the number of false discoveries," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(3), pages 411-426, June.
    2. Mette Langaas & Bo Henry Lindqvist & Egil Ferkingstad, 2005. "Estimating the proportion of true null hypotheses, with application to DNA microarray data," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 67(4), pages 555-572, September.
    3. Yu, Chang & Zelterman, Daniel, 2017. "A parametric model to estimate the proportion from true null using a distribution for p-values," Computational Statistics & Data Analysis, Elsevier, vol. 114(C), pages 105-118.
    4. Yongqiang Tang & Subhashis Ghosal & Anindya Roy, 2007. "Nonparametric Bayesian Estimation of Positive False Discovery Rates," Biometrics, The International Biometric Society, vol. 63(4), pages 1126-1134, December.
    5. Efron, Bradley, 2004. "Large-Scale Simultaneous Hypothesis Testing: The Choice of a Null Hypothesis," Journal of the American Statistical Association, American Statistical Association, vol. 99, pages 96-104, January.
    6. Friguet, Chloé & Kloareg, Maela & Causeur, David, 2009. "A Factor Model Approach to Multiple Testing Under Dependence," Journal of the American Statistical Association, American Statistical Association, vol. 104(488), pages 1406-1415.
    7. Efron B. & Tibshirani R. & Storey J.D. & Tusher V., 2001. "Empirical Bayes Analysis of a Microarray Experiment," Journal of the American Statistical Association, American Statistical Association, vol. 96, pages 1151-1160, December.
    8. Wenguang Sun & T. Tony Cai, 2009. "Large‐scale multiple testing under dependence," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 71(2), pages 393-424, April.
    9. Yoav Benjamini, 2010. "Discovering the false discovery rate," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 72(4), pages 405-416, September.
    10. Jin, Jiashun & Cai, T. Tony, 2007. "Estimating the Null and the Proportion of Nonnull Effects in Large-Scale Multiple Comparisons," Journal of the American Statistical Association, American Statistical Association, vol. 102, pages 495-506, June.
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