Table 3.
Range of gold standard p-value results and number of associations for the same SNP and phenotype matched across three methods of defining ICD-9 case/control status.
| Phenotype | Gold p-value avg | Gold p-value max | Number Gold Phenotype SNPs | Matched PheWAS Code Associations | Matched 5 Digit Associations | Matched 3 Digit Associations |
|---|---|---|---|---|---|---|
| T2DM | 5.33E-05 | 1.00E-04 | 563 | 559 | 558 | 562 |
| ACS | 5.17E-05 | 9.99E-05 | 399 | 13 | 19 | 4 |
| Non-Obstructive CAD | 3.80E-05 | 9.97E-05 | 738 | 114 | 76 | 76 |
| Obesity | 5.03E-05 | 9.99E-05 | 310 | 109 | 149 | 90 |
| Obstructive CAD | 5.14E-05 | 1.00E-04 | 721 | 159 | 22 | 22 |