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)
20_GeneEmbed_AD Exclusive	GS_tier2	7.90e-03	2.35e-02	5.20e-05	1.13e-03
GS_tier2 Exclusive	20_GeneEmbed_AD	3.79e-03	7.04e-04	7.28e-07	2.13e-09
20_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	1.86e-02	2.86e-02	1.23e-04	2.03e-03
GS_tier2 Exclusive	20_GeneEmbed_AD Exclusive	1.20e-02	1.20e-03	1.37e-05	1.13e-08
20_GeneEmbed_AD Exclusive	Overlap	1.98e-02	2.38e-01	1.98e-02	3.96e-02
GS_tier2 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	2.45e-08	6.50e-10	6.95e-13	2.10e-14



Evaluating how well 20_GeneEmbed_AD genes are linked to GS_tier2 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)
20_GeneEmbed_AD Exclusive	GS_tier2	0.69	3.17	3.20	2.07	4.93
GS_tier2 Exclusive	20_GeneEmbed_AD	0.88	2.35	4.13	2.41	5.97
20_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	0.68	3.01	2.76	2.12	4.24
GS_tier2 Exclusive	20_GeneEmbed_AD Exclusive	0.88	2.10	3.89	2.16	5.30
20_GeneEmbed_AD Exclusive	Overlap	0.96	1.73	1.17	1.67	1.84
GS_tier2 Exclusive	Overlap	1.00	1.88	1.47	1.83	1.82
Overlap	Exclusives	0.80	2.14	6.81	2.26	8.88

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)
20_GeneEmbed_AD Exclusive	GS_tier2	0.01	3.29	1.73	3.89	3.72
GS_tier2 Exclusive	20_GeneEmbed_AD	0.01	10.12	16.32	15.02	32.37
20_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	0.01	2.73	1.88	4.36	6.73
GS_tier2 Exclusive	20_GeneEmbed_AD Exclusive	0.01	6.68	16.39	7.54	16.38
20_GeneEmbed_AD Exclusive	Overlap	0.00	1.23	0.60	2.68	5.64
GS_tier2 Exclusive	Overlap	0.02	39.73	48.07	41.66	61.91
Overlap	Exclusives	0.02	3.74	16.96	4.77	24.83

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	 
20_GeneEmbed_AD Exclusive	19	19	
GS_tier2 Exclusive	45	42	IGH;TNSF13;TNSF12
Overlap	1	1