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) GeneGroup1 Exclusive GeneGroup2 4.32e-01 9.82e-01 2.99e-01 1.84e-01 GeneGroup2 Exclusive GeneGroup1 4.30e-01 4.60e-01 4.87e-04 4.90e-01 GeneGroup1 Exclusive GeneGroup2 Exclusive 5.53e-01 8.57e-01 4.60e-01 2.68e-01 GeneGroup2 Exclusive GeneGroup1 Exclusive 4.81e-01 6.97e-01 2.02e-04 3.35e-01 GeneGroup1 Exclusive Overlap 2.18e-01 1.98e-02 3.17e-01 4.36e-01 GeneGroup2 Exclusive Overlap 1.98e-02 1.98e-02 1.98e-02 1.98e-02 Overlap Exclusives 2.81e-03 2.32e-01 2.69e-19 1.69e-01 Evaluating how well GeneGroup1 genes are linked to GeneGroup2 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) GeneGroup1 Exclusive GeneGroup2 0.64 -0.64 0.15 -0.43 1.62 GeneGroup2 Exclusive GeneGroup1 0.49 1.67 0.76 0.74 -0.24 GeneGroup1 Exclusive GeneGroup2 Exclusive 0.62 -0.64 -0.25 -0.30 1.38 GeneGroup2 Exclusive GeneGroup1 Exclusive 0.47 1.39 0.54 1.04 -0.71 GeneGroup1 Exclusive Overlap 0.78 -0.85 2579287648100134.00 -0.59 1.00 GeneGroup2 Exclusive Overlap 1.00 1.92 2173637397101378.00 2.05 2.03 Overlap Exclusives 0.54 2225958339274288.00 2.28 0.77 0.91 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) GeneGroup1 Exclusive GeneGroup2 0.00 -0.13 1.29 0.07 1.66 GeneGroup2 Exclusive GeneGroup1 0.00 2.26 0.70 0.10 0.66 GeneGroup1 Exclusive GeneGroup2 Exclusive 0.00 0.04 1.26 0.42 1.44 GeneGroup2 Exclusive GeneGroup1 Exclusive 0.00 1.15 0.18 0.83 -0.10 GeneGroup1 Exclusive Overlap 0.00 -0.72 inf -0.38 -0.11 GeneGroup2 Exclusive Overlap 0.02 114.35 610962450151615616.00 17.63 115.56 Overlap Exclusives 0.01 9900608170341924.00 8.35 1.89 6.36 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 GeneGroup1 Exclusive 49 49 GeneGroup2 Exclusive 13 12 Parkin Overlap 1 1