Exact Conditional Efficiency Robust P-values from an Arbitrary Ranking of a Sample Space: an Application to Genome-wide Association Studied

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Max Moldovan
Mette Langaas

Abstract

We introduce a general method for computation of exact conditional efficiency robust enumeration p-values for detection of genotype-phenotype associations at a single bi-allelic genetic locus. Our method can be based on any arbitrary ranking test statistics, such as efficiency robust test statistics or asymptotic p-values. The resulting p-values are exact conditional enumeration p-values and satisfy the basic statistical validity property Pr(P ≤α |H0)≤α for all arameters under the null hypothesis and all significance levels α . Practically, the method allows performing statistically valid significance testing in genomic analyses with unknown modes of inheritance at individual bi-allelic genetic loci - the situation typical in genome-wide association studies. We provide an open-source R code implementing the method.

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How to Cite
Moldovan, M., & Langaas, M. (2014). Exact Conditional Efficiency Robust P-values from an Arbitrary Ranking of a Sample Space: an Application to Genome-wide Association Studied. Advances in Systems Science and Applications, 14(1), 76-83. Retrieved from https://ijassa.ipu.ru/index.php/ijassa/article/view/410
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