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)
EAML-Rare Exclusive	BRCA-All-GS	4.37e-01	9.48e-01	1.86e-02	1.18e-11
BRCA-All-GS Exclusive	EAML-Rare	3.45e-03	7.82e-01	1.04e-05	1.82e-01
EAML-Rare Exclusive	BRCA-All-GS Exclusive	6.00e-01	9.78e-01	1.96e-02	2.92e-10
BRCA-All-GS Exclusive	EAML-Rare Exclusive	6.26e-03	6.47e-01	2.15e-04	3.66e-02
EAML-Rare Exclusive	Overlap	4.41e-01	7.38e-01	8.41e-01	4.11e-02
BRCA-All-GS Exclusive	Overlap	2.40e-02	2.63e-02	3.20e-06	6.19e-05
Overlap	Exclusives	3.32e-09	5.13e-08	1.39e-30	3.49e-16



Evaluating how well EAML-Rare 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)
EAML-Rare Exclusive	BRCA-All-GS	0.65	0.82	0.08	-0.18	8.80
BRCA-All-GS Exclusive	EAML-Rare	0.48	0.82	-0.40	-0.03	-1.41
EAML-Rare Exclusive	BRCA-All-GS Exclusive	0.64	0.68	0.27	-0.32	7.73
BRCA-All-GS Exclusive	EAML-Rare Exclusive	0.46	0.37	-0.70	-0.56	-2.37
EAML-Rare Exclusive	Overlap	0.74	1.03	0.59	0.54	2.42
BRCA-All-GS Exclusive	Overlap	0.89	2.44	3.04	3.23	3.74
Overlap	Exclusives	0.61	4.11	5.99	3.04	8.77

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)
EAML-Rare Exclusive	BRCA-All-GS	0.02	0.32	-0.94	-0.96	8.95
BRCA-All-GS Exclusive	EAML-Rare	0.02	16.94	8.71	6.65	3.48
EAML-Rare Exclusive	BRCA-All-GS Exclusive	0.02	0.37	-0.81	-1.11	9.53
BRCA-All-GS Exclusive	EAML-Rare Exclusive	0.01	1.51	-0.12	-0.35	-1.96
EAML-Rare Exclusive	Overlap	0.00	0.71	0.09	0.19	2.06
BRCA-All-GS Exclusive	Overlap	0.16	126.67	279.65	452.41	201.11
Overlap	Exclusives	0.06	8.97	14.96	9.59	21.55

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	 
EAML-Rare Exclusive	284	279	C4B_2;GAGE2B;SSPO;TNFAIP8L2-SCNM1;GAGE2C
BRCA-All-GS Exclusive	254	254	
Overlap	8	8