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	4.28e-01	9.58e-01	1.77e-02	4.09e-11
BRCA-All-GS Exclusive	EAML-Rare	3.16e-03	7.62e-01	1.20e-05	2.28e-01
EAML-Rare Exclusive	BRCA-All-GS Exclusive	5.61e-01	9.55e-01	9.22e-03	4.41e-10
BRCA-All-GS Exclusive	EAML-Rare Exclusive	4.33e-03	6.22e-01	1.58e-04	3.85e-02
EAML-Rare Exclusive	Overlap	4.81e-01	6.70e-01	9.03e-01	3.62e-02
BRCA-All-GS Exclusive	Overlap	2.40e-02	3.06e-02	3.20e-06	4.72e-05
Overlap	Exclusives	5.77e-09	3.67e-08	9.02e-31	7.08e-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	0.16	-0.27	7.97
BRCA-All-GS Exclusive	EAML-Rare	0.48	0.62	-0.37	-0.12	-1.30
EAML-Rare Exclusive	BRCA-All-GS Exclusive	0.64	0.72	0.46	-0.32	7.65
BRCA-All-GS Exclusive	EAML-Rare Exclusive	0.46	0.49	-0.73	-0.40	-2.32
EAML-Rare Exclusive	Overlap	0.74	1.18	0.60	0.57	2.22
BRCA-All-GS Exclusive	Overlap	0.89	2.41	2.36	2.65	4.06
Overlap	Exclusives	0.61	4.28	6.18	3.20	9.13

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	0.41	-0.92	-0.98	7.79
BRCA-All-GS Exclusive	EAML-Rare	0.02	17.90	8.74	6.54	3.43
EAML-Rare Exclusive	BRCA-All-GS Exclusive	0.02	0.22	-0.66	-1.09	10.08
BRCA-All-GS Exclusive	EAML-Rare Exclusive	0.01	1.87	-0.23	-0.10	-1.84
EAML-Rare Exclusive	Overlap	0.00	0.82	0.24	0.07	0.09
BRCA-All-GS Exclusive	Overlap	0.16	95.11	193.03	377.68	288.81
Overlap	Exclusives	0.06	9.27	18.15	10.03	23.29

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	GAGE2C;SSPO;TNFAIP8L2-SCNM1;C4B_2;GAGE2B
BRCA-All-GS Exclusive	254	254	
Overlap	8	8