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-Familial Exclusive	BRCA-GWAS	1.52e-03	9.21e-04	5.20e-19	1.55e-13
BRCA-GWAS Exclusive	BRCA-Familial	2.54e-04	6.28e-04	3.40e-12	2.55e-15
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	8.58e-03	2.55e-04	5.20e-17	1.83e-11
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	1.71e-02	1.78e-02	3.92e-08	1.01e-11
BRCA-Familial Exclusive	Overlap	3.66e-05	6.60e-05	3.30e-07	8.67e-07
BRCA-GWAS Exclusive	Overlap	6.50e-04	2.03e-03	4.71e-07	3.94e-07
Overlap	Exclusives	6.99e-10	6.65e-07	1.51e-44	5.71e-22



Evaluating how well BRCA-Familial 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)
BRCA-Familial Exclusive	BRCA-GWAS	0.69	3.57	4.84	4.42	8.63
BRCA-GWAS Exclusive	BRCA-Familial	0.95	1.45	4.21	2.31	8.59
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.68	3.24	4.40	3.34	8.92
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.93	1.47	3.52	2.41	7.47
BRCA-Familial Exclusive	Overlap	0.99	1.05	5.13	2.90	4.59
BRCA-GWAS Exclusive	Overlap	1.00	1.80	6.25	2.18	4.78
Overlap	Exclusives	0.74	10.13	7.67	3.73	11.31

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-Familial Exclusive	BRCA-GWAS	0.02	1.28	7.64	10.15	15.49
BRCA-GWAS Exclusive	BRCA-Familial	0.24	7.85	19.82	59.47	487.53
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.02	1.60	4.98	5.70	15.68
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.12	6.30	17.51	51.01	256.71
BRCA-Familial Exclusive	Overlap	0.02	0.08	44.30	45.77	48.41
BRCA-GWAS Exclusive	Overlap	0.15	6.10	23.36	40.82	627.70
Overlap	Exclusives	0.04	11.86	17.51	17.98	43.34

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-Familial Exclusive	24	24	
BRCA-GWAS Exclusive	162	161	
Overlap	7	7