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	Rare2MethodConsensus	8.43e-03	2.41e-02	4.17e-13	2.07e-05
Rare2MethodConsensus Exclusive	BRCA-Familial	4.61e-15	5.71e-12	2.34e-17	7.29e-19
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	1.41e-01	9.97e-02	1.81e-14	2.46e-04
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	1.78e-09	1.57e-07	2.21e-11	3.26e-11
BRCA-Familial Exclusive	Overlap	5.33e-09	6.07e-09	5.33e-09	6.35e-09
Rare2MethodConsensus Exclusive	Overlap	2.14e-06	1.34e-05	1.94e-07	1.11e-08
Overlap	Exclusives	5.35e-04	1.85e-02	8.22e-18	7.57e-06



Evaluating how well BRCA-Familial genes are linked to Rare2MethodConsensus 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	Rare2MethodConsensus	0.63	3.66	3.20	2.68	5.76
Rare2MethodConsensus Exclusive	BRCA-Familial	0.99	2.44	7.23	2.71	8.37
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	0.60	3.07	2.49	1.99	4.53
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	0.98	2.46	5.37	2.86	6.57
BRCA-Familial Exclusive	Overlap	1.00	2.14	4.96	2.46	4.80
Rare2MethodConsensus Exclusive	Overlap	0.99	1.99	4.12	2.59	5.64
Overlap	Exclusives	0.63	1.32	2.82	2.22	6.54

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	Rare2MethodConsensus	0.04	34.17	46.86	25.95	51.77
Rare2MethodConsensus Exclusive	BRCA-Familial	0.06	4.91	42.58	19.43	132.97
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	0.02	19.35	17.23	14.70	17.73
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	0.02	8.08	29.48	22.83	93.37
BRCA-Familial Exclusive	Overlap	0.17	54.11	415.02	195.96	346.38
Rare2MethodConsensus Exclusive	Overlap	0.05	2.20	41.31	22.28	17.96
Overlap	Exclusives	0.03	10.68	23.54	18.98	26.38

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	14	14	
Rare2MethodConsensus Exclusive	148	145	;SSPO;C4B_2
Overlap	9	9