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	gwas2	1.04e-01	9.25e-01	2.91e-03	7.20e-01
gwas2 Exclusive	epp	3.70e-02	6.74e-01	1.22e-01	2.86e-02
epp Exclusive	gwas2 Exclusive	8.36e-02	8.79e-01	4.17e-03	7.34e-01
gwas2 Exclusive	epp Exclusive	2.77e-02	3.61e-01	1.73e-01	2.65e-02
epp Exclusive	Overlap	2.78e-01	6.73e-01	2.28e-01	1.33e-01
gwas2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	1.79e-07	4.83e-08	1.63e-21	1.72e-10



Evaluating how well epp genes are linked to gwas2 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	gwas2	0.54	-3.44	-0.63	-0.52	0.89
gwas2 Exclusive	epp	0.67	-0.69	-0.02	-0.47	2.43
epp Exclusive	gwas2 Exclusive	0.53	-3.73	-0.63	-0.60	0.61
gwas2 Exclusive	epp Exclusive	0.65	-0.90	-0.41	-0.36	2.06
epp Exclusive	Overlap	0.93	0.93	0.86	1.02	1.53
gwas2 Exclusive	Overlap	1.00	1.97	4.15	1.59	1.61
Overlap	Exclusives	0.79	5.70	7.52	3.08	7.22

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	gwas2	0.00	-1.29	-0.89	-0.54	-0.19
gwas2 Exclusive	epp	0.00	0.89	0.21	1.28	1.81
epp Exclusive	gwas2 Exclusive	0.00	-1.63	-1.01	-0.75	-0.23
gwas2 Exclusive	epp Exclusive	0.00	-0.88	-2.08	-0.53	-0.04
epp Exclusive	Overlap	0.00	0.12	0.67	0.25	0.16
gwas2 Exclusive	Overlap	0.01	79.46	470.21	36.50	24.13
Overlap	Exclusives	0.01	23.28	17.72	8.27	14.33

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	
gwas2 Exclusive	38	37	HLA
Overlap	1	1