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)
selected_2_AD_79_56 Exclusive	tier1_31	1.34e-05	1.07e-05	3.15e-05	4.75e-08
tier1_31 Exclusive	selected_2_AD_79_56	4.90e-01	6.17e-01	1.98e-01	5.99e-01
selected_2_AD_79_56 Exclusive	tier1_31 Exclusive	2.90e-04	3.77e-05	5.45e-04	2.90e-06
tier1_31 Exclusive	selected_2_AD_79_56 Exclusive	1.93e-01	6.46e-01	2.37e-01	2.68e-01
selected_2_AD_79_56 Exclusive	Overlap	9.07e-03	1.41e-01	3.19e-02	8.54e-03
tier1_31 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.74e-06
Overlap	Exclusives	3.18e-06	2.27e-08	2.95e-15	1.55e-08



Evaluating how well selected_2_AD_79_56 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)
selected_2_AD_79_56 Exclusive	tier1_31	0.80	3.03	5.60	2.78	6.25
tier1_31 Exclusive	selected_2_AD_79_56	0.52	0.96	0.81	0.81	0.59
selected_2_AD_79_56 Exclusive	tier1_31 Exclusive	0.79	2.61	5.11	3.19	4.92
tier1_31 Exclusive	selected_2_AD_79_56 Exclusive	0.49	0.26	0.17	0.32	-0.25
selected_2_AD_79_56 Exclusive	Overlap	0.93	2.64	2.37	2.32	2.92
tier1_31 Exclusive	Overlap	1.00	3.13	2.39	2.31	3.08
Overlap	Exclusives	0.68	6.02	6.41	4.09	5.73

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)
selected_2_AD_79_56 Exclusive	tier1_31	0.01	3.64	7.67	2.60	0.94
tier1_31 Exclusive	selected_2_AD_79_56	0.01	4.06	15.38	18.16	10.79
selected_2_AD_79_56 Exclusive	tier1_31 Exclusive	0.00	3.47	4.44	4.40	7.85
tier1_31 Exclusive	selected_2_AD_79_56 Exclusive	0.00	0.59	4.73	3.72	0.59
selected_2_AD_79_56 Exclusive	Overlap	0.00	5.27	4.44	2.83	1.41
tier1_31 Exclusive	Overlap	0.04	111.73	144.96	65.72	133.53
Overlap	Exclusives	0.04	71.48	66.55	43.20	25.25

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	 
selected_2_AD_79_56 Exclusive	53	52	EDDM13
tier1_31 Exclusive	28	27	MS4A
Overlap	3	3