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)
Rare_ComboConsensus Exclusive	BRCA-familial	7.15e-04	3.49e-04	1.73e-22	3.41e-21
BRCA-familial Exclusive	Rare_ComboConsensus	1.28e-05	6.42e-04	2.29e-29	5.55e-29
Rare_ComboConsensus Exclusive	BRCA-familial Exclusive	6.98e-04	7.93e-04	8.03e-16	1.79e-15
BRCA-familial Exclusive	Rare_ComboConsensus Exclusive	1.86e-04	1.76e-03	2.85e-27	3.08e-28
Rare_ComboConsensus Exclusive	Overlap	7.28e-04	3.85e-02	4.01e-08	1.11e-06
BRCA-familial Exclusive	Overlap	1.39e-10	3.07e-06	4.23e-15	9.12e-12
Overlap	Exclusives	2.36e-08	4.69e-06	3.16e-42	7.62e-30



Evaluating how well Rare_ComboConsensus genes are linked to BRCA-familial 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)
Rare_ComboConsensus Exclusive	BRCA-familial	0.97	2.44	4.82	2.59	8.70
BRCA-familial Exclusive	Rare_ComboConsensus	0.73	1.53	4.26	4.03	12.24
Rare_ComboConsensus Exclusive	BRCA-familial Exclusive	0.96	2.28	4.99	2.61	6.20
BRCA-familial Exclusive	Rare_ComboConsensus Exclusive	0.72	1.46	3.80	3.89	13.22
Rare_ComboConsensus Exclusive	Overlap	0.98	2.39	2.45	1.77	4.34
BRCA-familial Exclusive	Overlap	0.99	1.98	4.40	2.52	4.99
Overlap	Exclusives	0.74	2.71	6.28	2.48	13.57

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)
Rare_ComboConsensus Exclusive	BRCA-familial	0.04	-0.55	7.71	5.05	71.92
BRCA-familial Exclusive	Rare_ComboConsensus	0.04	2.98	9.60	13.36	28.47
Rare_ComboConsensus Exclusive	BRCA-familial Exclusive	0.02	-1.03	3.14	4.64	54.14
BRCA-familial Exclusive	Rare_ComboConsensus Exclusive	0.03	1.54	5.88	8.80	21.16
Rare_ComboConsensus Exclusive	Overlap	0.02	1.29	6.27	7.10	48.13
BRCA-familial Exclusive	Overlap	0.06	18.74	122.95	75.19	337.91
Overlap	Exclusives	0.05	3.80	17.10	10.62	37.73

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	 
Rare_ComboConsensus Exclusive	250	248	;PRAMEF11
BRCA-familial Exclusive	16	16	
Overlap	7	7