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	1.02e-03	7.69e-02	4.06e-09	7.48e-04
Rare2MethodConsensus Exclusive	BRCA-Familial	1.23e-08	3.50e-08	3.37e-13	4.96e-19
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	3.81e-03	5.01e-01	1.05e-08	1.26e-02
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	5.60e-05	3.04e-05	1.14e-08	1.74e-12
BRCA-Familial Exclusive	Overlap	6.07e-09	3.36e-07	5.33e-09	1.27e-08
Rare2MethodConsensus Exclusive	Overlap	7.41e-05	3.28e-04	6.06e-06	2.30e-08
Overlap	Exclusives	3.06e-05	9.45e-04	5.68e-19	6.46e-08



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	0.61	2.91	1.55	2.23	5.23
Rare2MethodConsensus Exclusive	BRCA-Familial	0.96	2.28	6.77	2.79	8.82
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	0.59	2.29	1.26	1.37	3.04
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	0.95	2.29	5.40	2.36	7.89
BRCA-Familial Exclusive	Overlap	1.00	2.02	4.39	2.66	5.54
Rare2MethodConsensus Exclusive	Overlap	0.99	1.93	3.92	2.47	5.13
Overlap	Exclusives	0.65	1.23	3.08	2.51	7.06

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	0.05	45.05	55.64	44.88	65.91
Rare2MethodConsensus Exclusive	BRCA-Familial	0.05	3.57	34.79	11.15	144.96
BRCA-Familial Exclusive	Rare2MethodConsensus Exclusive	0.02	13.89	15.55	16.82	17.20
Rare2MethodConsensus Exclusive	BRCA-Familial Exclusive	0.02	1.14	23.46	6.23	33.21
BRCA-Familial Exclusive	Overlap	0.26	42.58	359.30	237.43	540.33
Rare2MethodConsensus Exclusive	Overlap	0.04	2.50	42.05	12.32	96.61
Overlap	Exclusives	0.03	10.51	27.37	18.52	21.94

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	22	22	
Rare2MethodConsensus Exclusive	142	139	;SSPO;C4B_2
Overlap	9	9