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) APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 2.37e-02 2.44e-02 4.71e-02 1.46e-04 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 7.71e-01 5.65e-01 3.52e-01 5.42e-01 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 Exclusive 2.45e-02 1.71e-02 3.62e-02 6.16e-04 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive 8.86e-01 6.84e-01 4.62e-01 7.40e-01 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive Overlap 5.17e-01 5.17e-01 5.17e-01 4.03e-01 tier1_31 Exclusive Overlap 9.85e-05 9.85e-05 9.85e-05 9.85e-05 Overlap Exclusives 3.83e-04 1.08e-04 2.90e-16 6.51e-05 Evaluating how well APOE44 AD of ADC HC of OLD excluding APOE34_4_84 genes are linked to tier1_31 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) APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 0.72 2.26 3.83 2.00 4.87 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 0.54 1.18 1.13 1.70 1.20 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 Exclusive 0.72 2.44 3.48 2.08 4.05 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive 0.53 1.05 0.70 1.01 0.78 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive Overlap 0.77 0.60 0.46 0.71 1.53 tier1_31 Exclusive Overlap 1.00 2.60 1.63 2.26 2.30 Overlap Exclusives 0.63 6.43 5.51 3.61 5.10 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) APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 0.01 5.04 10.57 2.79 3.74 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 0.01 5.36 9.03 6.12 4.77 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive tier1_31 Exclusive 0.00 4.55 4.32 1.84 5.92 tier1_31 Exclusive APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive 0.01 0.71 3.06 1.26 3.04 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive Overlap 0.01 17.32 34.58 40.36 18.57 tier1_31 Exclusive Overlap 0.02 41.82 44.79 70.22 69.08 Overlap Exclusives 0.02 24.96 18.75 11.48 26.24 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 APOE44 AD of ADC HC of OLD excluding APOE34_4_84 Exclusive 82 81 TMEM191C tier1_31 Exclusive 29 28 MS4A Overlap 2 2