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	BRCA-Familial	1.37e-04	5.34e-04	7.80e-12	7.06e-16
BRCA-Familial Exclusive	BRCA-GWAS	2.35e-03	5.18e-04	2.90e-18	8.25e-14
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	1.61e-02	2.02e-02	1.71e-08	1.37e-11
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	8.10e-03	3.51e-04	1.56e-17	1.55e-11
BRCA-GWAS Exclusive	Overlap	5.36e-04	1.70e-03	4.71e-07	4.71e-07
BRCA-Familial Exclusive	Overlap	3.53e-05	9.46e-05	3.30e-07	6.12e-07
Overlap	Exclusives	7.78e-10	5.66e-07	1.05e-39	9.51e-21



Evaluating how well BRCA-GWAS genes are linked to BRCA-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	BRCA-Familial	0.95	1.81	3.82	2.29	7.79
BRCA-Familial Exclusive	BRCA-GWAS	0.69	3.03	5.10	4.46	8.17
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.93	1.66	4.00	2.38	8.50
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.68	3.62	3.83	4.04	8.04
BRCA-GWAS Exclusive	Overlap	1.00	1.64	5.88	2.01	4.57
BRCA-Familial Exclusive	Overlap	0.99	1.06	4.74	2.45	4.21
Overlap	Exclusives	0.74	9.60	6.50	3.95	11.03

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	BRCA-Familial	0.24	8.55	20.01	48.90	655.47
BRCA-Familial Exclusive	BRCA-GWAS	0.02	0.80	6.04	12.20	13.28
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.12	5.95	15.93	52.10	155.31
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.02	1.64	3.91	7.64	9.12
BRCA-GWAS Exclusive	Overlap	0.15	5.02	24.46	60.10	427.84
BRCA-Familial Exclusive	Overlap	0.02	0.30	44.82	33.92	103.43
Overlap	Exclusives	0.04	12.08	25.03	20.03	33.60

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	162	161	
BRCA-Familial Exclusive	24	24	
Overlap	7	7