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)
100_EAML_AD Exclusive	GS_tier1	5.43e-03	6.98e-02	6.18e-03	1.61e-03
GS_tier1 Exclusive	100_EAML_AD	4.61e-04	6.62e-09	2.58e-07	2.18e-09
100_EAML_AD Exclusive	GS_tier1 Exclusive	9.59e-03	9.05e-02	6.95e-03	9.35e-03
GS_tier1 Exclusive	100_EAML_AD Exclusive	2.30e-03	4.00e-08	6.39e-06	1.50e-09
100_EAML_AD Exclusive	Overlap	5.17e-01	5.17e-01	5.17e-01	1.31e-01
GS_tier1 Exclusive	Overlap	9.85e-05	9.85e-05	9.85e-05	9.85e-05
Overlap	Exclusives	6.52e-03	3.05e-12	2.39e-59	5.93e-21



Evaluating how well 100_EAML_AD genes are linked to 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)
100_EAML_AD Exclusive	GS_tier1	0.70	2.83	2.61	1.61	3.53
GS_tier1 Exclusive	100_EAML_AD	0.72	2.77	6.82	2.97	7.51
100_EAML_AD Exclusive	GS_tier1 Exclusive	0.69	2.58	2.52	1.80	3.50
GS_tier1 Exclusive	100_EAML_AD Exclusive	0.71	2.37	7.88	2.55	7.33
100_EAML_AD Exclusive	Overlap	0.85	0.16	0.41	0.72	1.92
GS_tier1 Exclusive	Overlap	1.00	2.44	2.41	2.61	2.38
Overlap	Exclusives	0.77	2.68	10.27	2.68	11.17

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)
100_EAML_AD Exclusive	GS_tier1	0.00	7.30	1.33	2.87	6.96
GS_tier1 Exclusive	100_EAML_AD	0.01	2.75	9.94	4.97	9.42
100_EAML_AD Exclusive	GS_tier1 Exclusive	0.00	5.49	2.32	3.26	1.65
GS_tier1 Exclusive	100_EAML_AD Exclusive	0.01	1.09	10.07	2.97	7.84
100_EAML_AD Exclusive	Overlap	0.00	3.22	-47.38	5.44	1.15
GS_tier1 Exclusive	Overlap	0.04	65.19	155.30	237.51	98.88
Overlap	Exclusives	0.07	36.56	101.72	28.44	114.58

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	 
100_EAML_AD Exclusive	98	98	
GS_tier1 Exclusive	29	28	MS4A
Overlap	2	2