For exon-level assessments 5,357 significant associations were identified in the two tissue types combined and 1,554 remained after removal of associated SNPs. We also removed associations where the probeset contained the associated SNP or a SNP in high linkage disequilibrium (LD, r 2 > 0.5), leaving 985 associations. Significant associations that overlapped between the two tissue types were merged, resulting in 929 unique exon-level associations. We also identified a subset of these as high confidence (see Table 2 and Table S3) on the basis of the following criteria: (1) p < 10−12, (2) no reported SNPs within the regions covered by the associated probesets, and (3) no suggested cross-hybridization of the associating probeset.
