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)
Rare2MethodGenes Exclusive	BRCA-GWAS	4.99e-01	6.88e-01	1.44e-03	3.53e-06
BRCA-GWAS Exclusive	Rare2MethodGenes	6.70e-01	7.36e-02	1.16e-07	9.32e-06
Rare2MethodGenes Exclusive	BRCA-GWAS Exclusive	4.23e-01	6.78e-01	4.18e-03	3.57e-05
BRCA-GWAS Exclusive	Rare2MethodGenes Exclusive	6.71e-01	1.01e-01	5.40e-07	2.36e-04
Rare2MethodGenes Exclusive	Overlap	1.66e-01	1.66e-01	2.51e-02	2.93e-03
BRCA-GWAS Exclusive	Overlap	1.53e-02	1.10e-01	1.13e-04	1.13e-04
Overlap	Exclusives	7.82e-03	4.99e-03	2.38e-44	1.78e-09



Evaluating how well Rare2MethodGenes 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)
Rare2MethodGenes Exclusive	BRCA-GWAS	0.63	0.87	1.24	1.52	5.61
BRCA-GWAS Exclusive	Rare2MethodGenes	0.61	1.22	1.66	1.79	4.37
Rare2MethodGenes Exclusive	BRCA-GWAS Exclusive	0.61	1.06	1.09	1.28	4.95
BRCA-GWAS Exclusive	Rare2MethodGenes Exclusive	0.59	1.02	1.21	1.76	3.91
Rare2MethodGenes Exclusive	Overlap	0.86	0.00	0.61	0.52	4.01
BRCA-GWAS Exclusive	Overlap	0.94	1.24	1.75	1.96	4.15
Overlap	Exclusives	0.63	2.30	3.25	2.18	8.35

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)
Rare2MethodGenes Exclusive	BRCA-GWAS	0.02	0.37	2.67	2.78	6.53
BRCA-GWAS Exclusive	Rare2MethodGenes	0.02	3.40	9.91	9.67	19.39
Rare2MethodGenes Exclusive	BRCA-GWAS Exclusive	0.01	-0.17	0.99	1.38	6.69
BRCA-GWAS Exclusive	Rare2MethodGenes Exclusive	0.02	2.74	10.75	8.68	15.22
Rare2MethodGenes Exclusive	Overlap	0.02	6.42	20.15	11.28	7.00
BRCA-GWAS Exclusive	Overlap	0.02	3.06	1.74	19.64	10.00
Overlap	Exclusives	0.03	4.21	9.95	7.80	15.99

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	 
Rare2MethodGenes Exclusive	148	146	SSPO;C4B_2
BRCA-GWAS Exclusive	164	164	
Overlap	9	8