Haplotype analyses were performed assessing Χ2 in Haploview v4.040. The Χ2 is also appropriate given the ethnic homogeneity of our sample and the absence of observed substructure in the Irish population44. We also use HAPLOVIEW to identify significant (p<0.001) departures from Hardy-Weinberg Equilibrium (HWE) and compare linkage disequilibrium (LD) against HapMap data. Haplotypes were analyzed within blocks defined by the default confidence-interval method45. In one additional analysis undertaken on the basis of single marker association results, we analyzed rs7597593 (not included in any confidence-interval defined block) with the confidence-interval defined SNP set that includes rs1344706. We assessed empirical significance of haplotype results with 5000 permutations of case and control status.
