We applied LCV to the 429 trait pairs (32% of all trait pairs) with a nominally significant genetic correlation (p<0.05), detecting significant evidence of full or partial genetic causality for 59 trait pairs (FDR < 1%), including 30 trait pairs with gcp^>0.6. We primarily focus on trait pairs with high gcp estimates, which have greater biological interest (and are extremely unlikely to be false positives; see Simulations). Results for selected trait pairs are displayed in Figure 4; results for the 30 trait pairs with gcp^>0.6 are reported in Table 1; results for all 59 significant trait pairs are reported in Supplementary Table 11; and results for all 429 genetically correlated trait pairs are reported in Supplementary Table 12. To investigate the possibility that these results could be affected by model misspecification, we developed an auxiliary test for partial genetic causality that does not rely on LCV model assumptions (Supplementary Note). This test, though underpowered, produces highly concordant results on these trait pairs, confirming that LCV is unlikely to be affected by model misspecification
