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	4.87e-01	8.53e-01	2.33e-04	6.16e-02
gwas1 Exclusive	epp	4.09e-02	2.27e-02	4.09e-02	5.35e-17
epp Exclusive	gwas1 Exclusive	3.79e-01	7.99e-01	8.64e-04	9.76e-02
gwas1 Exclusive	epp Exclusive	5.69e-02	2.88e-02	5.53e-02	3.11e-16
epp Exclusive	Overlap	9.92e-02	4.91e-01	9.92e-02	9.92e-02
gwas1 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	6.80e-02	6.67e-05	3.07e-40	9.19e-21



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	0.63	0.38	0.29	1.00	2.34
gwas1 Exclusive	epp	0.73	-0.71	2.25	0.54	8.33
epp Exclusive	gwas1 Exclusive	0.62	0.61	0.30	0.56	2.24
gwas1 Exclusive	epp Exclusive	0.73	-0.80	2.41	0.45	7.90
epp Exclusive	Overlap	0.99	2.10	0.64	1.45	1.55
gwas1 Exclusive	Overlap	1.00	1.83	4.90	1.97	1.89
Overlap	Exclusives	0.76	9.72	5.82	1.91	10.24

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	2.75	-0.52	2.47	4.38
gwas1 Exclusive	epp	0.01	0.10	2.07	1.53	10.38
epp Exclusive	gwas1 Exclusive	0.00	1.77	0.31	0.36	0.08
gwas1 Exclusive	epp Exclusive	0.01	-0.25	1.64	1.03	6.29
epp Exclusive	Overlap	0.00	10.07	-0.53	12.38	19.68
gwas1 Exclusive	Overlap	0.01	48.81	681.96	49.37	46.84
Overlap	Exclusives	0.02	1.68	13.32	3.40	9.45

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	119	118	BRD2
gwas1 Exclusive	24	23	HLA -DRB1
Overlap	1	1