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)
PathwayEAML	GWAS	5.84e-05	1.20e-01	6.89e-03	1.39e-01
GWAS	PathwayEAML	1.44e-06	2.37e-03	9.87e-02	1.08e-03



Evaluating how well PathwayEAML 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)
PathwayEAML	GWAS	0.54	-2.26	-1.68	-1.24	0.63
GWAS	PathwayEAML	0.56	-1.06	-2.87	-0.78	2.14

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)
PathwayEAML	GWAS	0.00	-0.98	-1.26	-0.52	-0.16
GWAS	PathwayEAML	0.01	-0.94	-2.21	-0.71	0.01

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	 
PathwayEAML	125	124	TFDP2
GWAS	25	25