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 Hallmark 	AD GWAS-identified	7.74e-02	3.76e-06	5.20e-06	7.09e-05
AD GWAS-identified	AD Hallmark 	5.15e-05	1.57e-02	1.14e-04	4.13e-05



Evaluating how well AD Hallmark  genes are linked to AD GWAS-identified 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 Hallmark 	AD GWAS-identified	0.95	-0.32	3.75	2.38	1.57
AD GWAS-identified	AD Hallmark 	1.00	2.09	2.48	2.40	1.85

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 Hallmark 	AD GWAS-identified	0.03	5.67	63.59	8.64	13.47
AD GWAS-identified	AD Hallmark 	0.02	17.15	8.79	2.04	20.45

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 Hallmark 	5	5	
AD GWAS-identified	23	20	EPHA1;CD2AP;ZCWPW1