Table 1 Suggested reasons for the difference in power between the score test and our approach for some genes
From: A method to incorporate prior information into score test for genetic association studies
Genes | Partitioning | Suggested reason for the difference in performance |
|---|---|---|
Genes for which our method outperformed the score test | ||
ARNT | MAF and functionality | All common non-synonymous SNPs are causal. |
ELAVL4 | MAF | Association of the three common non-causal SNPs with Q1*. |
HIF1A | MAF | The only common SNP is causal. |
VNN1 | MAF | The only common SNP is causal. |
FLT1 | MAF and functionality | All common non-synonymous SNPs are causal. |
PIK3C3 | MAF and functionality | All common non-synonymous SNPs are causal. |
Genes for which the score test outperformed our method | ||
KDR, BCHE, SOS2 | - | No clear separation of associated variants from neutral ones using any of the considered partitionings. |