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	7.25e-01	6.63e-01	6.40e-04	2.93e-02
AD-Final25	BRCA-Familial	1.36e-02	5.97e-01	2.69e-02	1.07e-03



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	0.66	0.61	0.89	0.75	2.80
AD-Final25	BRCA-Familial	0.71	-1.00	-0.74	-0.52	4.42

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)
BRCA-Familial	AD-Final25	0.00	-0.37	-0.22	0.19	1.45
AD-Final25	BRCA-Familial	0.00	-0.65	-0.35	0.10	0.48

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	31	31	
AD-Final25	25	25