Of the 12 SNPs (table 1) meeting the association criteria for follow up, we selected 8 SNPs based upon r2<0.97 (table 2). In the Cardiff Full sample, only intronic marker rs17584522 was associated with schizophrenia at a level of significance within 1 order of magnitude of that of rs1344706, the initial ‘hit-SNP’ from our earlier paper (table 2). Table 2 shows that all SNPs tested in fatSNP phase 2 are weakly-moderately correlated with rs1344706 (r2max =0.43) but are in moderately strong LD (D’min=0.7). To test whether any of these associations are independent of rs1344706, we performed forward stepwise logistic regression analysis in the Cardiff Full sample, including all fatSNP phase 2 SNPs. Only one SNP (rs12613195) was nominally significant (P=0.021) after allowing for the effects of rs1344706 (data not shown). Given the multiple testing of SNPs, we conclude that there is no convincing evidence for an association signal independent of rs1344706. Moreover, haplotype analysis based upon fatSNP phase 2 markers did not produce results more significant than that of single marker analysis (data not shown). A combined analysis of the
