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Biometrika. 2014;101(4):964-970.

Analytic P-value calculation for the higher criticism test in finite d problems.

Author information

1
Department of Biostatistics, Harvard University, Boston, Massachusetts 02115, U.S.A.

Abstract

The higher criticism is effective for testing a joint null hypothesis against a sparse alternative, e.g., for testing the effect of a gene or a genetic pathway that consists of d genetic markers. Accurate p-value calculations for the higher criticism based on the asymptotic distribution require a very large d, which is not the case for the number of genetic variants in a gene or a pathway. In this paper we propose an analytic method that accurately computes the p-value of the higher criticism test for finite d problems. Unlike previous treatments, this method does not rely on asymptotics in d or simulation, and is exact for arbitrary d when the test statistics are normally distributed. The method is particularly computationally advantageous when d is not large. We illustrate the proposed method with a case-control genome-wide association study of lung cancer and compare its power to competing methods through simulations.

KEYWORDS:

Empirical process; Genome-wide association studies; Higher criticism; Multiple hypothesis testing; Signal detection

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