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)
Rare2MethodGenes Exclusive	BRCA-All-GS	2.66e-05	3.24e-04	5.21e-09	1.80e-19
BRCA-All-GS Exclusive	Rare2MethodGenes	1.21e-03	9.48e-02	1.92e-09	3.87e-05
Rare2MethodGenes Exclusive	BRCA-All-GS Exclusive	4.08e-04	2.54e-03	5.25e-08	2.72e-17
BRCA-All-GS Exclusive	Rare2MethodGenes Exclusive	1.17e-02	3.45e-01	4.60e-07	3.45e-03
Rare2MethodGenes Exclusive	Overlap	2.14e-04	1.52e-03	4.53e-05	2.59e-07
BRCA-All-GS Exclusive	Overlap	5.43e-08	5.93e-06	1.24e-09	6.95e-10
Overlap	Exclusives	1.26e-12	1.52e-10	3.13e-41	7.38e-28



Evaluating how well Rare2MethodGenes genes are linked to BRCA-All-GS 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)
Rare2MethodGenes Exclusive	BRCA-All-GS	0.70	1.99	4.27	2.37	9.58
BRCA-All-GS Exclusive	Rare2MethodGenes	0.63	3.14	3.44	2.48	5.18
Rare2MethodGenes Exclusive	BRCA-All-GS Exclusive	0.69	2.17	4.33	2.67	10.49
BRCA-All-GS Exclusive	Rare2MethodGenes Exclusive	0.59	2.44	2.26	2.54	3.54
Rare2MethodGenes Exclusive	Overlap	0.91	1.46	2.54	1.90	5.16
BRCA-All-GS Exclusive	Overlap	0.98	2.86	3.28	3.10	5.51
Overlap	Exclusives	0.69	2.92	7.90	3.95	13.11

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)
Rare2MethodGenes Exclusive	BRCA-All-GS	0.05	3.20	15.35	5.14	30.81
BRCA-All-GS Exclusive	Rare2MethodGenes	0.07	17.97	62.81	30.23	77.83
Rare2MethodGenes Exclusive	BRCA-All-GS Exclusive	0.04	2.61	10.55	5.09	23.65
BRCA-All-GS Exclusive	Rare2MethodGenes Exclusive	0.01	10.58	7.89	7.66	9.19
Rare2MethodGenes Exclusive	Overlap	0.03	2.51	17.82	13.26	59.24
BRCA-All-GS Exclusive	Overlap	0.39	10.52	148.42	75.00	926.46
Overlap	Exclusives	0.07	7.65	33.73	19.81	53.38

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	 
Rare2MethodGenes Exclusive	145	142	;SSPO;C4B_2
BRCA-All-GS Exclusive	248	248	
Overlap	14	14