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)
BRCA-Familial	AD-Final25	3.04e-03	8.39e-01	8.67e-02	5.67e-02
AD-Final25	BRCA-Familial	2.45e-04	1.67e-03	8.50e-02	2.59e-02



Evaluating how well BRCA-Familial genes are linked to AD-Final25 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)
BRCA-Familial	AD-Final25	0.60	-1.50	-0.94	-0.31	1.74
AD-Final25	BRCA-Familial	0.62	-1.42	-4.40	-1.24	2.10

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)
BRCA-Familial	AD-Final25	0.00	-1.06	-0.86	-0.46	0.39
AD-Final25	BRCA-Familial	0.00	-0.55	-2.05	-0.58	0.23

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	 
BRCA-Familial	23	23	
AD-Final25	25	25