Table 2.
Established loci that are represented on the ITMAT-Broad-CARe (IBC) array at equal or greater coverage than GWAS arrays but that did not show array-wide significant P-value in Phase IV meta-analysis (n = 92 903)
| Chr. | Candidate gene | Previous lead SNP | IBC SNP with strongest P-value |
IBC SNP of highest r2 with previous lead SNP |
||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SNP | Effect | r2 with previous SNPa | P-value | Same direction of effect | SNP | Effect | r2 with previous SNPa | P-value | Same direction of effect | |||
| 1p31.1 | TNNI3K | rs1514175 | rs7553158 | 0.015 | 0.97 | 1.49E-03 | Yes | rs1514176 | 0.014 | 1.00 | 3.45E-03 | Yes |
| 19q13.3 | GIPR | rs2287019 | rs11672660 | 0.028 | 0.67 | 2.74E-06 | Yes | rs11672660 | 0.028 | 0.67 | 2.74E-06 | Yes |
Chr., chromosome.
aLinkage disequilibrium measure r2 with the previous lead SNP in column three.