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)
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31	3.83e-08	6.22e-09	1.01e-09	7.91e-12
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC	9.51e-02	7.80e-03	1.30e-03	3.46e-03
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31 Exclusive	6.87e-07	3.79e-08	3.69e-08	8.66e-10
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	3.88e-01	1.54e-02	2.00e-03	1.21e-02
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	Overlap	2.81e-02	4.71e-02	2.52e-02	1.24e-03
tier1_31 Exclusive	Overlap	9.14e-09	2.30e-07	1.83e-09	6.40e-08
Overlap	Exclusives	3.37e-04	2.64e-05	9.39e-13	1.35e-06



Evaluating how well Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC 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)
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31	0.86	3.24	5.45	4.37	6.55
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC	0.61	3.84	3.35	3.10	3.56
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31 Exclusive	0.85	3.71	6.29	4.42	5.98
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	0.59	2.90	2.95	2.86	3.22
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	Overlap	0.94	2.19	2.82	2.60	3.12
tier1_31 Exclusive	Overlap	1.00	2.97	2.91	3.19	3.54
Overlap	Exclusives	0.66	4.65	5.92	3.10	6.36

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)
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31	0.02	9.55	30.31	19.45	3.89
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC	0.02	25.90	21.32	9.88	31.18
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	tier1_31 Exclusive	0.01	12.74	28.72	18.85	19.78
tier1_31 Exclusive	Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	0.01	10.58	6.67	7.63	4.81
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	Overlap	0.00	7.01	12.58	5.58	5.63
tier1_31 Exclusive	Overlap	0.08	141.25	109.37	297.51	233.55
Overlap	Exclusives	0.07	82.24	91.18	45.89	57.28

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	 
Sigma_EUR_stats_related_clean_AD_selected_2_APOE34AD_APOE3HC Exclusive	93	92	AC093155.3
tier1_31 Exclusive	27	26	MS4A
Overlap	4	4