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)
EPI_AD_106 Exclusive	ad_gs_tier1	2.90e-13	1.04e-12	1.27e-13	1.58e-14
ad_gs_tier1 Exclusive	EPI_AD_106	4.22e-02	1.02e-01	1.13e-02	3.52e-02
EPI_AD_106 Exclusive	ad_gs_tier1 Exclusive	3.02e-13	2.81e-13	2.20e-13	1.12e-13
ad_gs_tier1 Exclusive	EPI_AD_106 Exclusive	4.71e-02	8.62e-02	2.20e-02	3.89e-02
EPI_AD_106 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
ad_gs_tier1 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	2.31e-03	5.98e-05	1.88e-44	1.39e-06



Evaluating how well EPI_AD_106 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)
EPI_AD_106 Exclusive	ad_gs_tier1	0.88	3.75	7.58	4.07	7.52
ad_gs_tier1 Exclusive	EPI_AD_106	0.59	4.00	2.96	3.29	3.41
EPI_AD_106 Exclusive	ad_gs_tier1 Exclusive	0.87	4.41	8.29	4.06	6.95
ad_gs_tier1 Exclusive	EPI_AD_106 Exclusive	0.58	4.18	2.63	3.26	2.97
EPI_AD_106 Exclusive	Overlap	1.00	1.14	125620155926309.00	1.20	2.02
ad_gs_tier1 Exclusive	Overlap	1.00	1.09	inf	1.64	1.80
Overlap	Exclusives	0.65	inf	5.53	2.68	6.63

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)
EPI_AD_106 Exclusive	ad_gs_tier1	0.06	64.25	195.29	68.51	113.13
ad_gs_tier1 Exclusive	EPI_AD_106	0.03	42.40	41.93	16.95	34.20
EPI_AD_106 Exclusive	ad_gs_tier1 Exclusive	0.05	85.19	160.31	63.59	108.70
ad_gs_tier1 Exclusive	EPI_AD_106 Exclusive	0.03	44.71	36.30	39.53	41.09
EPI_AD_106 Exclusive	Overlap	0.03	35.27	inf	33.94	84.89
ad_gs_tier1 Exclusive	Overlap	0.02	33.07	151272923003761312.00	54.40	40.38
Overlap	Exclusives	0.03	12820757726817824.00	36.03	15.02	38.13

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	 
EPI_AD_106 Exclusive	105	103	AL162417.1;RFPL2
ad_gs_tier1 Exclusive	30	29	MS4A
Overlap	1	1