. 2012 Sep 1;2(9):1067–1075. doi: 10.1534/g3.112.002618

Table 1 . r² results for hypergeometric-theoretical P values, hypergeometric-empirical P values, and r² difference between the hypergeometric-theoretical P values and the hypergeometric-empirical P values.

	Hypergeometric r²	Empirical r²	Difference r²
Genes	0.014	0.039	0.225
SNPs	0.061	0.058	0.431
SNP-gene ratio	0.056	0.013	0.082

The predictive variables used were functions of the number of genes, the number of SNPs, or the SNP-gene ratio in the pathways. These predictors were categorized into groups representing the size of the pathway (i.e., amount of genes/SNPs/SNP-gene ratio on each pathway).

Table 1 . r2 results for hypergeometric-theoretical P values, hypergeometric-empirical P values, and r2 difference between the hypergeometric-theoretical P values and the hypergeometric-empirical P values.

Table 1 . r² results for hypergeometric-theoretical P values, hypergeometric-empirical P values, and r² difference between the hypergeometric-theoretical P values and the hypergeometric-empirical P values.