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	All-Familial	2.79e-05	1.06e-03	2.87e-15	1.46e-16
All-Familial Exclusive	BRCA-GWAS	4.22e-03	3.82e-03	3.67e-15	1.14e-10
BRCA-GWAS Exclusive	All-Familial Exclusive	1.35e-04	1.50e-03	4.91e-12	1.59e-14
All-Familial Exclusive	BRCA-GWAS Exclusive	1.67e-02	2.53e-03	9.99e-14	1.12e-09
BRCA-GWAS Exclusive	Overlap	2.48e-03	3.14e-02	3.95e-05	5.15e-05
All-Familial Exclusive	Overlap	1.30e-03	1.62e-02	4.13e-05	1.38e-04
Overlap	Exclusives	9.93e-10	2.62e-11	1.94e-39	8.64e-24



Evaluating how well BRCA-GWAS genes are linked to All-Familial 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	All-Familial	0.85	1.83	5.02	3.19	9.49
All-Familial Exclusive	BRCA-GWAS	0.66	1.81	3.20	3.20	6.51
BRCA-GWAS Exclusive	All-Familial Exclusive	0.84	2.06	4.89	2.58	10.22
All-Familial Exclusive	BRCA-GWAS Exclusive	0.65	2.07	2.82	2.80	7.50
BRCA-GWAS Exclusive	Overlap	0.98	1.90	1.73	2.10	3.60
All-Familial Exclusive	Overlap	0.97	2.11	2.14	2.02	4.16
Overlap	Exclusives	0.74	2.22	9.00	2.94	12.36

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	All-Familial	0.07	5.36	8.45	33.27	157.73
All-Familial Exclusive	BRCA-GWAS	0.02	0.06	6.19	7.88	8.58
BRCA-GWAS Exclusive	All-Familial Exclusive	0.07	4.67	14.02	24.18	174.03
All-Familial Exclusive	BRCA-GWAS Exclusive	0.02	-0.34	5.34	6.32	9.64
BRCA-GWAS Exclusive	Overlap	0.01	3.18	0.09	9.65	49.00
All-Familial Exclusive	Overlap	0.03	6.54	44.27	45.74	90.09
Overlap	Exclusives	0.05	5.02	36.89	14.72	44.24

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	168	167	
All-Familial Exclusive	55	55	
Overlap	5	5