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)
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31	2.34e-02	2.09e-02	4.66e-02	3.04e-05
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5	2.84e-01	1.96e-01	1.04e-01	1.68e-01
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31 Exclusive	4.87e-02	3.36e-02	1.93e-02	2.09e-04
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5 Exclusive	2.43e-01	2.94e-01	1.69e-01	2.20e-01
EUR_stats_related_clean_AD_3_5 Exclusive	Overlap	2.35e-01	4.58e-01	1.92e-01	5.84e-02
tier1_31 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.74e-06
Overlap	Exclusives	1.14e-03	4.68e-05	3.89e-14	4.61e-06



Evaluating how well EUR_stats_related_clean_AD_3_5 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)
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31	0.73	1.85	3.12	1.78	4.35
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5	0.54	1.42	1.97	1.40	1.98
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31 Exclusive	0.71	1.79	2.78	2.03	4.18
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5 Exclusive	0.53	0.90	1.53	1.45	1.56
EUR_stats_related_clean_AD_3_5 Exclusive	Overlap	0.86	1.57	1.26	1.95	2.00
tier1_31 Exclusive	Overlap	1.00	3.05	2.84	2.48	2.97
Overlap	Exclusives	0.61	4.07	5.01	2.99	5.15

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)
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31	0.01	2.43	5.24	2.80	5.57
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5	0.01	5.39	4.31	5.41	6.79
EUR_stats_related_clean_AD_3_5 Exclusive	tier1_31 Exclusive	0.00	3.10	3.72	4.41	6.80
tier1_31 Exclusive	EUR_stats_related_clean_AD_3_5 Exclusive	0.01	2.43	1.44	2.23	2.95
EUR_stats_related_clean_AD_3_5 Exclusive	Overlap	0.00	6.36	8.59	5.51	1.29
tier1_31 Exclusive	Overlap	0.04	87.09	164.24	97.63	11.26
Overlap	Exclusives	0.03	13.45	12.80	15.10	18.03

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	 
EUR_stats_related_clean_AD_3_5 Exclusive	177	173	AC006059.2;TM9SF1;EDDM13;AC093512.2
tier1_31 Exclusive	28	27	MS4A
Overlap	3	3