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)
vep_2ML_Method_Common Exclusive	BRCA-GWAS	9.32e-01	9.24e-01	9.03e-02	5.92e-05
BRCA-GWAS Exclusive	vep_2ML_Method_Common	1.08e-01	7.85e-01	4.29e-01	1.85e-01
vep_2ML_Method_Common Exclusive	BRCA-GWAS Exclusive	9.20e-01	8.90e-01	5.98e-02	8.39e-05
BRCA-GWAS Exclusive	vep_2ML_Method_Common Exclusive	1.07e-01	5.82e-01	5.02e-01	1.79e-01
vep_2ML_Method_Common Exclusive	Overlap	3.35e-01	3.51e-01	3.67e-01	6.31e-01
BRCA-GWAS Exclusive	Overlap	4.72e-01	8.29e-01	7.14e-01	8.47e-01
Overlap	Exclusives	7.29e-02	2.54e-01	1.85e-08	1.65e-06



Evaluating how well vep_2ML_Method_Common genes are linked to BRCA-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)
vep_2ML_Method_Common Exclusive	BRCA-GWAS	0.60	0.20	0.45	0.18	4.15
BRCA-GWAS Exclusive	vep_2ML_Method_Common	0.54	-0.68	-0.19	-0.18	0.80
vep_2ML_Method_Common Exclusive	BRCA-GWAS Exclusive	0.60	0.34	0.38	0.30	4.40
BRCA-GWAS Exclusive	vep_2ML_Method_Common Exclusive	0.55	-0.68	-0.14	-0.10	1.02
vep_2ML_Method_Common Exclusive	Overlap	0.42	-1.00	-1.00	-1.08	-0.35
BRCA-GWAS Exclusive	Overlap	0.52	-0.36	-0.12	-0.20	0.02
Overlap	Exclusives	0.60	-0.23	0.36	-0.02	5.15

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)
vep_2ML_Method_Common Exclusive	BRCA-GWAS	0.01	0.14	0.19	0.32	2.44
BRCA-GWAS Exclusive	vep_2ML_Method_Common	0.00	1.72	1.34	1.16	0.46
vep_2ML_Method_Common Exclusive	BRCA-GWAS Exclusive	0.01	0.41	0.12	0.43	3.00
BRCA-GWAS Exclusive	vep_2ML_Method_Common Exclusive	0.00	1.65	1.42	1.24	0.04
vep_2ML_Method_Common Exclusive	Overlap	0.00	-0.40	-0.34	-0.41	-0.29
BRCA-GWAS Exclusive	Overlap	0.00	-0.46	-0.25	-0.42	-0.37
Overlap	Exclusives	0.01	-0.57	-0.95	-0.41	3.48

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	 
vep_2ML_Method_Common Exclusive	27	27	
BRCA-GWAS Exclusive	172	172	
Overlap	1	1