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. Author manuscript; available in PMC: 2013 Jul 1.
Published in final edited form as: Addict Biol. 2011 Jul 18;17(4):798–806. doi: 10.1111/j.1369-1600.2011.00338.x

Table 2.

Gene-level and pathway results based on two-step analysis, with genes ordered by p-value.

Gene Numbers of SNPs p-value*
GRIA2 52 0.034
GRIA4 87 0.055
GRIN2A 183 0.095
GRIA3 97 0.240
CAMK2A 39 0.290
GRIA1 127 0.300
CAMK2B 42 0.330
MAPK14 32 0.450
GRIN2B 222 0.470
MPDZ 40 0.540
RAP1GAP 40 0.62
SYNGAP1 16 0.66
GRIN1 11 0.97
Gene-set 988 0.149
*

Gene-level p-values in the two-step analysis are based on a logistic regression analysis with the top principal components, explaining 80% of all SNP variation in each gene, as the predictors. The gene-set p-value is based on combining the gene-level p-values using Fisher’s method (Fisher, 1932), with significance assessed by permutation (see text for details).