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-Somatic Exclusive	VEPRare2MethodConsensusAC1	1.79e-02	1.40e-01	5.24e-13	1.15e-04
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic	3.53e-02	2.67e-02	6.87e-08	1.49e-17
BRCA-Somatic Exclusive	VEPRare2MethodConsensusAC1 Exclusive	1.97e-02	1.96e-01	5.64e-12	2.37e-04
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic Exclusive	9.50e-02	1.37e-02	2.04e-07	2.32e-16
BRCA-Somatic Exclusive	Overlap	1.15e-02	2.43e-02	1.15e-02	1.22e-02
VEPRare2MethodConsensusAC1 Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.22e-02
Overlap	Exclusives	4.92e-07	1.35e-05	7.65e-28	1.73e-13



Evaluating how well BRCA-Somatic 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-Somatic Exclusive	VEPRare2MethodConsensusAC1	0.62	2.28	2.45	2.14	4.73
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic	0.90	1.50	3.16	2.50	8.06
BRCA-Somatic Exclusive	VEPRare2MethodConsensusAC1 Exclusive	0.61	2.69	2.18	2.15	4.27
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic Exclusive	0.90	1.34	3.18	2.31	8.95
BRCA-Somatic Exclusive	Overlap	1.00	1.40	2.06	1.73	2.34
VEPRare2MethodConsensusAC1 Exclusive	Overlap	1.00	1.45	3.07	1.61	2.16
Overlap	Exclusives	0.69	2.75	4.14	2.04	7.88

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-Somatic Exclusive	VEPRare2MethodConsensusAC1	0.01	0.17	2.88	4.09	6.89
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic	0.02	0.02	11.24	3.09	22.56
BRCA-Somatic Exclusive	VEPRare2MethodConsensusAC1 Exclusive	0.01	0.61	2.06	3.21	2.97
VEPRare2MethodConsensusAC1 Exclusive	BRCA-Somatic Exclusive	0.02	-0.51	8.42	2.17	39.11
BRCA-Somatic Exclusive	Overlap	0.01	1.64	8.04	45.94	0.83
VEPRare2MethodConsensusAC1 Exclusive	Overlap	0.03	11.04	179.52	47.21	23.99
Overlap	Exclusives	0.03	10.09	18.00	8.43	30.81

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-Somatic Exclusive	35	35	
VEPRare2MethodConsensusAC1 Exclusive	124	123	PRAMEF11
Overlap	2	2