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-TCGA	AD-Final25	3.79e-02	5.64e-01	2.32e-01	1.05e-01
AD-Final25	BRCA-TCGA	7.20e-05	1.68e-01	3.92e-01	2.77e-04



Evaluating how well BRCA-TCGA 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-TCGA	AD-Final25	0.61	-1.38	-0.54	0.12	1.92
AD-Final25	BRCA-TCGA	0.63	-1.46	-1.90	-1.16	3.66

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-TCGA	AD-Final25	0.00	-1.16	-0.97	-0.18	0.07
AD-Final25	BRCA-TCGA	0.00	-0.86	-1.66	-0.67	1.79

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-TCGA	58	58	
AD-Final25	25	25