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)
EPI Exclusive	GWAS	2.32e-01	2.10e-01	2.31e-01	6.40e-02
GWAS Exclusive	EPI	6.63e-01	5.16e-01	7.61e-01	4.56e-01
EPI Exclusive	GWAS Exclusive	1.90e-01	2.13e-01	9.32e-02	7.31e-02
GWAS Exclusive	EPI Exclusive	7.30e-01	4.93e-01	5.14e-01	5.05e-01
EPI Exclusive	Overlap	7.14e-01	6.20e-01	5.27e-01	9.65e-01
GWAS Exclusive	Overlap	8.92e-01	8.39e-01	8.82e-01	8.28e-01
Overlap	Exclusives	1.13e-01	1.32e-01	4.29e-02	6.83e-03



Evaluating how well EPI genes are linked to GWAS 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)
EPI Exclusive	GWAS	0.54	-1.07	-1.27	-1.08	1.51
GWAS Exclusive	EPI	0.46	-0.80	-0.97	-0.99	-1.23
EPI Exclusive	GWAS Exclusive	0.54	-1.08	-1.15	-1.54	1.48
GWAS Exclusive	EPI Exclusive	0.46	-0.79	-0.79	-0.89	-1.02
EPI Exclusive	Overlap	0.56	0.40	0.75	0.66	0.19
GWAS Exclusive	Overlap	0.48	-0.23	0.13	-0.15	-0.20
Overlap	Exclusives	0.59	0.68	2.27	1.32	3.64

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)
EPI Exclusive	GWAS	0.00	-0.75	-1.24	-0.84	0.03
GWAS Exclusive	EPI	0.00	-0.66	-0.60	-0.91	-1.27
EPI Exclusive	GWAS Exclusive	0.00	-0.82	-0.99	-1.08	-0.03
GWAS Exclusive	EPI Exclusive	0.00	-0.66	-0.89	-0.90	-0.93
EPI Exclusive	Overlap	0.00	-0.26	-0.12	-0.15	-0.29
GWAS Exclusive	Overlap	0.00	-0.46	-0.26	-0.41	-0.25
Overlap	Exclusives	0.01	0.16	0.73	0.38	1.28

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	 
EPI Exclusive	47	47	
GWAS Exclusive	75	74	CASC16
Overlap	2	2