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)
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS	2.55e-02	6.96e-01	4.54e-02	4.27e-04
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5	2.74e-03	3.76e-01	3.38e-04	2.65e-02
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS Exclusive	2.21e-02	6.75e-01	1.29e-01	1.71e-03
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5 Exclusive	1.71e-03	3.11e-01	3.04e-03	8.24e-02
vep_2method_RareCon_AC5 Exclusive	Overlap	1.14e-01	1.14e-01	2.26e-02	3.63e-03
BRCA-GWAS Exclusive	Overlap	1.61e-02	6.76e-02	7.15e-04	2.18e-04
Overlap	Exclusives	4.00e-03	1.30e-02	1.48e-55	5.03e-09



Evaluating how well vep_2method_RareCon_AC5 genes are linked to BRCA-GWAS 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)
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS	0.59	-1.27	-0.81	-0.39	4.27
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5	0.56	-1.52	-1.30	-0.30	2.63
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS Exclusive	0.58	-1.29	-0.91	-0.50	3.82
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5 Exclusive	0.54	-1.45	-1.42	-0.56	1.92
vep_2method_RareCon_AC5 Exclusive	Overlap	0.87	0.15	1.32	0.73	3.64
BRCA-GWAS Exclusive	Overlap	0.94	1.07	1.51	1.83	4.19
Overlap	Exclusives	0.62	2.07	3.21	2.15	7.59

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)
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS	0.01	-1.70	-0.59	-0.49	3.43
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5	0.01	-0.33	-0.13	1.59	2.29
vep_2method_RareCon_AC5 Exclusive	BRCA-GWAS Exclusive	0.01	-1.54	-1.35	-0.97	3.37
BRCA-GWAS Exclusive	vep_2method_RareCon_AC5 Exclusive	0.01	-1.06	-1.10	-0.12	1.13
vep_2method_RareCon_AC5 Exclusive	Overlap	0.01	2.55	18.71	7.76	2.64
BRCA-GWAS Exclusive	Overlap	0.01	1.52	0.62	11.11	20.91
Overlap	Exclusives	0.04	5.56	12.41	10.53	19.75

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	 
vep_2method_RareCon_AC5 Exclusive	190	188	;PRAMEF11
BRCA-GWAS Exclusive	166	166	
Overlap	7	7