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-Somatic	2.42e-09	9.71e-08	1.90e-22	4.01e-24
BRCA-Somatic Exclusive	BRCA-Familial	2.19e-14	3.82e-08	7.19e-19	1.29e-17
BRCA-Familial Exclusive	BRCA-Somatic Exclusive	3.26e-05	4.93e-05	1.48e-16	1.02e-16
BRCA-Somatic Exclusive	BRCA-Familial Exclusive	3.88e-06	1.14e-03	1.35e-11	1.36e-09
BRCA-Familial Exclusive	Overlap	1.90e-06	2.45e-05	1.27e-09	1.54e-09
BRCA-Somatic Exclusive	Overlap	2.33e-11	5.34e-10	1.13e-11	2.54e-11
Overlap	Exclusives	2.35e-31	2.96e-21	4.64e-37	3.67e-33



Evaluating how well BRCA-Familial genes are linked to BRCA-Somatic 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-Somatic	0.95	2.34	6.99	3.83	10.74
BRCA-Somatic Exclusive	BRCA-Familial	0.96	1.62	6.89	3.07	8.75
BRCA-Familial Exclusive	BRCA-Somatic Exclusive	0.94	1.97	5.54	3.70	8.52
BRCA-Somatic Exclusive	BRCA-Familial Exclusive	0.93	1.21	4.59	2.55	6.37
BRCA-Familial Exclusive	Overlap	0.97	2.32	3.25	3.32	5.73
BRCA-Somatic Exclusive	Overlap	1.00	1.68	4.91	3.47	5.30
Overlap	Exclusives	0.97	4.25	8.27	4.47	11.04

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-Somatic	0.03	0.78	17.09	15.99	55.43
BRCA-Somatic Exclusive	BRCA-Familial	0.07	2.15	32.97	37.29	128.75
BRCA-Familial Exclusive	BRCA-Somatic Exclusive	0.01	0.51	8.60	13.88	20.55
BRCA-Somatic Exclusive	BRCA-Familial Exclusive	0.02	0.34	7.87	16.01	38.01
BRCA-Familial Exclusive	Overlap	0.02	0.79	20.21	19.09	55.75
BRCA-Somatic Exclusive	Overlap	0.08	1.99	62.79	95.84	244.52
Overlap	Exclusives	0.12	23.64	82.43	78.33	283.69

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	19	19	
BRCA-Somatic Exclusive	28	28	
Overlap	12	12