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	2.29e-01	6.27e-01	5.76e-01	7.56e-10
BRCA-All-GS Exclusive	EPI-Rare	8.58e-02	7.18e-01	4.08e-05	5.23e-01
EPI-Rare Exclusive	BRCA-All-GS Exclusive	1.14e-01	6.30e-01	7.22e-01	1.55e-09
BRCA-All-GS Exclusive	EPI-Rare Exclusive	2.18e-01	7.21e-01	4.68e-04	6.55e-01
EPI-Rare Exclusive	Overlap	5.16e-01	4.04e-01	7.32e-01	9.28e-03
BRCA-All-GS Exclusive	Overlap	9.58e-05	8.83e-03	2.64e-06	5.25e-06
Overlap	Exclusives	2.31e-07	4.71e-13	2.28e-48	2.68e-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	0.67	1.09	0.13	6.64
BRCA-All-GS Exclusive	EPI-Rare	0.53	1.70	1.58	1.25	1.65
EPI-Rare Exclusive	BRCA-All-GS Exclusive	0.64	0.83	0.73	0.22	7.97
BRCA-All-GS Exclusive	EPI-Rare Exclusive	0.51	1.64	0.87	0.69	0.28
EPI-Rare Exclusive	Overlap	0.79	0.35	0.08	0.31	2.50
BRCA-All-GS Exclusive	Overlap	0.98	3.38	3.09	2.80	5.18
Overlap	Exclusives	0.67	5.11	8.36	3.30	13.42

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	0.32	1.66	0.03	9.56
BRCA-All-GS Exclusive	EPI-Rare	0.02	22.55	22.53	17.04	15.99
EPI-Rare Exclusive	BRCA-All-GS Exclusive	0.02	0.44	1.34	0.07	10.43
BRCA-All-GS Exclusive	EPI-Rare Exclusive	0.01	1.85	0.62	0.06	-0.29
EPI-Rare Exclusive	Overlap	0.00	0.17	0.75	-0.12	2.29
BRCA-All-GS Exclusive	Overlap	0.20	46.22	100.77	146.01	751.86
Overlap	Exclusives	0.06	8.49	26.90	11.69	42.39

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	C4B_2;SSPO
BRCA-All-GS Exclusive	254	254	
Overlap	8	8