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)
EPI-Rare Exclusive	BRCA-All-GS	3.20e-01	7.03e-01	7.73e-01	9.26e-10
BRCA-All-GS Exclusive	EPI-Rare	8.14e-02	7.78e-01	4.43e-05	5.02e-01
EPI-Rare Exclusive	BRCA-All-GS Exclusive	1.62e-01	5.76e-01	6.54e-01	1.38e-09
BRCA-All-GS Exclusive	EPI-Rare Exclusive	2.27e-01	7.78e-01	4.40e-04	6.79e-01
EPI-Rare Exclusive	Overlap	5.16e-01	4.30e-01	8.61e-01	8.83e-03
BRCA-All-GS Exclusive	Overlap	9.58e-05	1.07e-02	2.64e-06	5.87e-06
Overlap	Exclusives	1.81e-07	2.06e-13	4.30e-48	2.85e-25



Evaluating how well EPI-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)
EPI-Rare Exclusive	BRCA-All-GS	0.64	0.63	0.76	0.18	6.85
BRCA-All-GS Exclusive	EPI-Rare	0.53	1.78	1.34	1.27	1.44
EPI-Rare Exclusive	BRCA-All-GS Exclusive	0.64	0.87	0.77	0.14	7.64
BRCA-All-GS Exclusive	EPI-Rare Exclusive	0.51	1.47	0.94	0.77	0.35
EPI-Rare Exclusive	Overlap	0.79	0.42	0.17	0.11	3.30
BRCA-All-GS Exclusive	Overlap	0.98	3.38	3.28	3.10	4.14
Overlap	Exclusives	0.67	5.35	7.57	3.37	13.30

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)
EPI-Rare Exclusive	BRCA-All-GS	0.02	0.37	1.19	-0.06	8.22
BRCA-All-GS Exclusive	EPI-Rare	0.02	24.56	19.22	11.88	15.29
EPI-Rare Exclusive	BRCA-All-GS Exclusive	0.02	0.44	1.37	-0.02	7.18
BRCA-All-GS Exclusive	EPI-Rare Exclusive	0.01	1.45	0.67	0.29	-0.26
EPI-Rare Exclusive	Overlap	0.00	0.26	0.97	-0.31	0.10
BRCA-All-GS Exclusive	Overlap	0.20	40.80	97.07	196.38	723.07
Overlap	Exclusives	0.06	9.33	25.84	10.74	38.11

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	 
EPI-Rare Exclusive	154	152	SSPO;C4B_2
BRCA-All-GS Exclusive	254	254	
Overlap	8	8