TABLE 5.
Performance and calibration statistics of hypertension model incorporating SBayesRC PRSs derived from GWAS, MTAG, and GenomicSEM in Lifelines.
| Model 1 | Model 2 | Model 3 | Model 4 | |
|---|---|---|---|---|
| (only covariates) | (covariates+GWAS PRS) | (covariates+MTAG PRS) | (covariates+ GenomicSEM PRS) | |
| AUROC (95% CI) | 0.791 (0.781–0.801) | 0.826 (0.817–0.836) | 0.826 (0.816–0.835) | 0.825 (0.815–0.834) |
| Brier Score | 0.142 | 0.130 | 0.130 | 0.131 |
| Youden cut point | ||||
| Specificity | 0.70 | 0.74 | 0.72 | 0.76 |
| Sensitivity | 0.73 | 0.76 | 0.78 | 0.75 |
| Youden index | 1.428 | 1.504 | 1.504 | 1.502 |
| NPV | 0.893 | 0.910 | 0.914 | 0.906 |
| PPV | 0.428 | 0.476 | 0.467 | 0.486 |
| Percentile of the total sample at the cut point | 57.8% | 62.1% | 60.5% | 63.8% |
| NRI | — | 0.080 (0.063–0.096) | 0.081 (0.065–0.098) | 0.080 (0.063–0.097) |
Abbreviations: AUROC, area under the receiver operating characteristic curve; CI, confidence interval; GenomicSEM, genomic structural equation modeling; GWAS, genome‐wide association study; MTAG, multi‐trait analysis of GWAS; NRI, net reclassification improvement; NPV, negative predictive value; PPV, positive predictive value; PRS, polygenic risk score; PCs, principal components.
Note: Model 1: HTN~age+age2+sex+BMI+PC1+PC2+PC3+PC4+PC5+PC6+PC7+PC8+PC9+PC10.
Model 2: Model 1+PRS(GWAS‐SBP)+PRS(GWAS‐DBP).
Model 3: Model 1+PRS(MTAG‐SBP)+PRS(MTAG‐DBP).
Model 4: Model 1+PRS(GenomicSEM).
SBP and DBP in MTAG were derived from SBP‐DBP two‐trait model.