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)
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1	5.06e-01	6.15e-01	1.16e-04	4.24e-04
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS	3.33e-02	1.30e-01	2.58e-05	3.94e-07
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1 Exclusive	5.02e-01	6.11e-01	3.17e-04	1.23e-03
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS Exclusive	4.29e-02	1.55e-01	4.92e-05	9.45e-06
BRCA-GWAS Exclusive	Overlap	8.63e-02	2.92e-01	5.16e-03	9.82e-04
VEPRare2MethodConsensusAC1 Exclusive	Overlap	6.32e-02	1.05e-01	3.07e-03	6.73e-04
Overlap	Exclusives	7.58e-02	1.98e-03	1.70e-51	1.03e-10



Evaluating how well BRCA-GWAS genes are linked to VEPRare2MethodConsensusAC1 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)
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1	0.60	0.10	0.60	1.14	3.87
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS	0.61	-0.24	0.11	0.79	4.58
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1 Exclusive	0.58	0.01	0.59	0.80	3.06
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS Exclusive	0.60	-0.36	-0.14	0.58	4.23
BRCA-GWAS Exclusive	Overlap	0.93	0.85	1.37	1.34	3.68
VEPRare2MethodConsensusAC1 Exclusive	Overlap	0.94	1.68	1.93	2.15	3.42
Overlap	Exclusives	0.64	2.03	3.81	1.90	8.75

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)
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1	0.01	0.98	1.69	3.87	6.17
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS	0.02	0.58	2.40	2.91	4.96
BRCA-GWAS Exclusive	VEPRare2MethodConsensusAC1 Exclusive	0.01	0.69	1.47	1.95	1.62
VEPRare2MethodConsensusAC1 Exclusive	BRCA-GWAS Exclusive	0.01	0.17	1.29	2.09	5.76
BRCA-GWAS Exclusive	Overlap	0.01	0.99	0.10	6.13	18.89
VEPRare2MethodConsensusAC1 Exclusive	Overlap	0.01	7.20	7.95	9.88	11.13
Overlap	Exclusives	0.03	3.87	10.62	6.44	18.63

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	 
BRCA-GWAS Exclusive	167	167	
VEPRare2MethodConsensusAC1 Exclusive	120	119	PRAMEF11
Overlap	6	6