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)
AD-Final25	BRCA-GWAS	8.79e-02	6.37e-01	1.01e-01	1.06e-06
BRCA-GWAS	AD-Final25	8.83e-01	6.91e-01	7.34e-03	5.49e-03



Evaluating how well AD-Final25 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)
AD-Final25	BRCA-GWAS	0.61	0.03	0.08	0.31	4.29
BRCA-GWAS	AD-Final25	0.69	-0.21	1.13	0.88	3.70

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)
AD-Final25	BRCA-GWAS	0.01	-0.29	-0.97	0.33	3.35
BRCA-GWAS	AD-Final25	0.00	-0.82	0.66	0.29	0.12

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	 
AD-Final25	25	25	
BRCA-GWAS	169	168