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)
All-Familial Exclusive	BRCA-GWAS	3.54e-03	2.42e-03	6.07e-15	4.89e-11
BRCA-GWAS Exclusive	All-Familial	1.69e-05	7.39e-04	3.41e-15	8.09e-17
All-Familial Exclusive	BRCA-GWAS Exclusive	1.79e-02	3.99e-03	2.37e-14	2.04e-09
BRCA-GWAS Exclusive	All-Familial Exclusive	1.07e-04	1.26e-03	4.91e-12	2.87e-14
All-Familial Exclusive	Overlap	1.30e-03	1.48e-02	4.51e-05	2.47e-04
BRCA-GWAS Exclusive	Overlap	2.95e-03	4.70e-02	3.15e-05	5.87e-05
Overlap	Exclusives	7.69e-10	5.79e-11	5.59e-47	7.73e-24



Evaluating how well All-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)
All-Familial Exclusive	BRCA-GWAS	0.66	1.78	3.27	3.03	8.12
BRCA-GWAS Exclusive	All-Familial	0.85	2.05	4.77	2.65	9.84
All-Familial Exclusive	BRCA-GWAS Exclusive	0.65	2.23	2.49	3.20	7.34
BRCA-GWAS Exclusive	All-Familial Exclusive	0.84	1.69	4.70	2.74	7.92
All-Familial Exclusive	Overlap	0.97	2.01	2.06	2.26	3.94
BRCA-GWAS Exclusive	Overlap	0.98	1.87	1.67	2.39	3.86
Overlap	Exclusives	0.74	2.59	8.83	2.75	11.69

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)
All-Familial Exclusive	BRCA-GWAS	0.02	-0.02	6.55	8.65	16.10
BRCA-GWAS Exclusive	All-Familial	0.07	6.48	8.43	23.79	108.11
All-Familial Exclusive	BRCA-GWAS Exclusive	0.02	-0.29	4.30	6.31	14.03
BRCA-GWAS Exclusive	All-Familial Exclusive	0.07	4.87	13.68	22.25	118.12
All-Familial Exclusive	Overlap	0.03	9.36	39.25	47.71	91.66
BRCA-GWAS Exclusive	Overlap	0.01	2.26	0.04	12.53	20.64
Overlap	Exclusives	0.05	5.01	33.01	13.34	53.08

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	 
All-Familial Exclusive	55	55	
BRCA-GWAS Exclusive	168	167	
Overlap	5	5