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)
epp Exclusive	gwas1	9.11e-02	9.43e-01	1.49e-03	6.31e-01
gwas1 Exclusive	epp	2.74e-02	5.77e-01	1.59e-01	1.57e-02
epp Exclusive	gwas1 Exclusive	1.01e-01	9.49e-01	2.99e-03	7.85e-01
gwas1 Exclusive	epp Exclusive	1.34e-02	5.53e-01	9.92e-02	2.61e-02
epp Exclusive	Overlap	1.95e-01	5.10e-01	1.49e-01	1.49e-01
gwas1 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	1.04e-07	3.89e-08	1.16e-22	4.56e-10



Evaluating how well epp genes are linked to gwas1 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)
epp Exclusive	gwas1	0.54	-4.12	-0.28	-0.53	0.91
gwas1 Exclusive	epp	0.67	-0.74	-0.12	-0.39	2.37
epp Exclusive	gwas1 Exclusive	0.53	-3.72	-0.53	-0.49	0.47
gwas1 Exclusive	epp Exclusive	0.65	-1.19	-0.27	-0.50	2.14
epp Exclusive	Overlap	0.93	1.11	0.99	1.14	1.44
gwas1 Exclusive	Overlap	1.00	1.72	4.21	1.64	1.61
Overlap	Exclusives	0.79	5.68	7.38	2.87	6.84

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)
epp Exclusive	gwas1	0.00	-1.21	-0.67	-0.52	-0.24
gwas1 Exclusive	epp	0.00	1.06	0.44	1.71	0.94
epp Exclusive	gwas1 Exclusive	0.00	-1.53	-0.85	-0.77	-0.34
gwas1 Exclusive	epp Exclusive	0.00	-0.88	-1.67	-0.65	0.74
epp Exclusive	Overlap	0.00	0.25	0.87	0.49	0.01
gwas1 Exclusive	Overlap	0.01	58.54	475.30	23.34	20.37
Overlap	Exclusives	0.01	21.99	17.72	7.05	21.64

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	 
epp Exclusive	16	16	
gwas1 Exclusive	38	37	HLA
Overlap	1	1