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)
mudiff_122_AD Exclusive	ad_gs_tier1	2.20e-07	6.32e-08	1.09e-09	8.31e-10
ad_gs_tier1 Exclusive	mudiff_122_AD	7.85e-02	1.12e-01	7.51e-03	2.61e-03
mudiff_122_AD Exclusive	ad_gs_tier1 Exclusive	6.77e-06	5.05e-07	5.48e-08	5.34e-08
ad_gs_tier1 Exclusive	mudiff_122_AD Exclusive	2.35e-01	2.32e-01	2.55e-02	1.34e-02
mudiff_122_AD Exclusive	Overlap	2.73e-05	1.28e-02	6.04e-07	6.40e-08
ad_gs_tier1 Exclusive	Overlap	1.83e-09	1.83e-09	1.83e-09	1.83e-09
Overlap	Exclusives	4.67e-05	1.00e-04	1.81e-16	4.93e-07



Evaluating how well mudiff_122_AD genes are linked to ad_gs_tier1 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)
mudiff_122_AD Exclusive	ad_gs_tier1	0.85	3.50	7.48	3.53	6.40
ad_gs_tier1 Exclusive	mudiff_122_AD	0.60	3.01	2.16	3.09	3.74
mudiff_122_AD Exclusive	ad_gs_tier1 Exclusive	0.83	4.25	6.03	3.19	5.21
ad_gs_tier1 Exclusive	mudiff_122_AD Exclusive	0.58	3.23	1.76	2.56	3.04
mudiff_122_AD Exclusive	Overlap	0.99	2.65	2.78	2.95	3.63
ad_gs_tier1 Exclusive	Overlap	1.00	2.75	3.10	3.39	3.26
Overlap	Exclusives	0.64	3.17	5.96	3.36	5.85

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)
mudiff_122_AD Exclusive	ad_gs_tier1	0.02	17.76	40.95	21.27	39.42
ad_gs_tier1 Exclusive	mudiff_122_AD	0.03	26.85	25.22	20.09	27.25
mudiff_122_AD Exclusive	ad_gs_tier1 Exclusive	0.01	26.10	41.03	9.54	24.00
ad_gs_tier1 Exclusive	mudiff_122_AD Exclusive	0.02	18.81	13.58	11.20	16.99
mudiff_122_AD Exclusive	Overlap	0.01	20.52	22.16	37.51	81.63
ad_gs_tier1 Exclusive	Overlap	0.10	347.92	150.15	204.85	325.12
Overlap	Exclusives	0.09	37.96	115.38	67.30	119.64

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	 
mudiff_122_AD Exclusive	118	117	RFPL2
ad_gs_tier1 Exclusive	27	26	MS4A
Overlap	4	4