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	1.10e-02	2.79e-04	5.52e-16	9.47e-14
BRCA-GWAS Exclusive	BRCA-Familial	1.58e-02	6.76e-02	1.55e-07	9.02e-11
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	4.29e-02	2.76e-04	3.13e-15	1.47e-12
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	1.43e-01	1.15e-01	2.35e-05	1.54e-09
BRCA-Familial Exclusive	Overlap	1.38e-03	1.38e-03	1.38e-03	1.38e-03
BRCA-GWAS Exclusive	Overlap	3.54e-03	4.43e-03	1.45e-03	1.60e-03
Overlap	Exclusives	8.49e-05	2.26e-05	4.41e-40	6.34e-19



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	3.35	5.04	3.91	7.86
BRCA-GWAS Exclusive	BRCA-Familial	0.93	1.39	3.58	1.94	7.29
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.68	2.95	4.52	4.10	8.44
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.92	1.27	3.36	1.57	6.22
BRCA-Familial Exclusive	Overlap	1.00	1.52	2.83	2.34	3.74
BRCA-GWAS Exclusive	Overlap	0.99	1.13	2.70	1.50	3.00
Overlap	Exclusives	0.72	2.78	6.36	2.61	10.70

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	7.08	9.03	9.42
BRCA-GWAS Exclusive	BRCA-Familial	0.13	6.10	9.97	40.18	228.63
BRCA-Familial Exclusive	BRCA-GWAS Exclusive	0.02	0.73	4.16	7.21	9.17
BRCA-GWAS Exclusive	BRCA-Familial Exclusive	0.13	5.74	15.10	37.67	98.21
BRCA-Familial Exclusive	Overlap	0.03	4.73	64.64	51.95	90.90
BRCA-GWAS Exclusive	Overlap	0.02	1.85	0.57	9.64	15.52
Overlap	Exclusives	0.03	5.31	22.00	9.26	28.47

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	20	20	
BRCA-GWAS Exclusive	170	169	
Overlap	3	3