Comparing distributions of experimental and random diffusion values (p-values for KS tests) Seeds Recipients Randomize Seeds (degree-matched) Randomize Recipients (degree-matched) Randomize Seeds (uniform) Randomize Recipients (uniform) epp Exclusive gwas2 9.47e-01 5.87e-01 1.05e-01 9.03e-02 gwas2 Exclusive epp 4.89e-01 6.52e-01 7.02e-01 2.79e-03 epp Exclusive gwas2 Exclusive 9.55e-01 6.65e-01 5.91e-02 1.42e-01 gwas2 Exclusive epp Exclusive 5.13e-01 5.87e-01 7.09e-01 6.23e-03 epp Exclusive Overlap 9.92e-02 9.92e-02 9.92e-02 1.05e-01 gwas2 Exclusive Overlap 9.92e-02 9.92e-02 9.92e-02 1.05e-01 Overlap Exclusives 7.06e-09 9.12e-08 6.91e-35 8.55e-12 Evaluating how well epp genes are linked to gwas2 genes, comparing against random ROC results Seeds Recipients AUROC Z-score for Random Seeds (degree-matched) Z-score for Random Recipients (degree-matched) Z-score for Random Seeds (uniform) Z-score for Random Recipients (uniform) epp Exclusive gwas2 0.59 0.04 0.96 0.47 2.11 gwas2 Exclusive epp 0.61 0.39 0.82 0.81 4.37 epp Exclusive gwas2 Exclusive 0.58 0.19 0.86 0.38 1.44 gwas2 Exclusive epp Exclusive 0.61 0.36 0.95 0.74 3.16 epp Exclusive Overlap 0.99 1.14 1.52 1.29 1.56 gwas2 Exclusive Overlap 1.00 1.71 4.45 1.68 1.77 Overlap Exclusives 0.71 7.82 6.67 3.37 8.69 PRC results Seeds Recipients AUPRC Z-score for Random Seeds (degree-matched) Z-score for Random Recipients (degree-matched) Z-score for Random Seeds (uniform) Z-score for Random Recipients (uniform) epp Exclusive gwas2 0.00 -0.09 0.26 0.09 1.67 gwas2 Exclusive epp 0.01 1.26 0.96 1.22 3.59 epp Exclusive gwas2 Exclusive 0.00 -0.14 -0.00 -0.08 0.64 gwas2 Exclusive epp Exclusive 0.01 0.19 0.27 0.48 1.14 epp Exclusive Overlap 0.00 3.15 8.16 4.88 4.70 gwas2 Exclusive Overlap 0.01 69.04 506.66 79.35 7.99 Overlap Exclusives 0.02 23.15 17.45 7.36 19.78 Z-scores are computed for the experimental area under ROC or PRC based on distributions of the random areas under these curves Seeds: Genes where diffusion signal starts FROM) Recipients: Genes that receive the diffusion signal and that are in the other validated group Random genes are selected either uniformly or degree matched Number of genes ** #Total # Mapped in the network Not mapped genes epp Exclusive 80 79 CMKBR6 gwas2 Exclusive 38 37 HLA Overlap 1 1