Résumé :
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[BDSP. Notice produite par INIST-CNRS 8ER0x8Cs. Diffusion soumise à autorisation]. Background : The P-value approach has been employed to prioritizing genome-wide association (GWA) scan signals, with a genome-wide significance defined by a prior P-value threshold, although this is not ideal. A rationale put forward is that the association signals rather should be expected to give less support for single nucleotide polymorphisms (SNPs) that are rare (with associated low-power tests) than for common SNPs with equivalent P-values, unless investigators believe, a priori, that rare causative variants contribute to the disease and have more pronounced effects. Methods : Using data from a GWA scan for type 2 diabetes (1924 cases, 2938 controls, 393453 SNPs), we compared P-values with four alternative signal measures : likelihood ratio (LR), Bayes factor (BF ; with a specified prior distribution for true effects), frequentist factor' (FF ; reflecting the ratio between estimated-post-data-power'and P-value) and probability of pronounced effect size (PrPES). Results : The 19 common SNPs [minor allele frequency (MAF) among the controls>29% ] yielding strong P-value signals (P
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