Table 5.

Summary of ρ_AUC and rd_AUC when using PRStuning to predict AUCs for four PRS methods on four diseases

Disease	P+T	C+T	LDpred	LDpred2
T2D	0.731 (0.2%)	0.514 (3.5%)	0.982 (2.2%)	0.856 (1.5%)
CAD	0.817 (0.8%)	−0.102 (0.4%)	0.969 (7.1%)	0.784 (4.6%)
IBD	0.491 (1.6%)	0.858 (2.1%)	0.987 (5.6%)	0.926 (5.0%)
BC	0.936 (1.2%)	0.956 (0.9%)	0.950 (0.2%)	0.922 (0.1%)

The rd_AUC values are summarized in parenthesis. Note that the standard deviations among the AUC values with different parameters were less than 0.01 for both methods when using C+T on CAD. The extremely small standard deviations of AUC contribute to the large variation of the correlation, leading to a negative ρ_AUC.