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	9.75e-02	2.06e-06	2.41e-06	9.70e-05
AD GWAS	AD Hallmark	6.41e-05	1.94e-02	1.24e-04	3.97e-05



Evaluating how well AD Hallmark genes are linked to AD 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 Hallmark	AD GWAS	0.95	-0.45	4.07	2.44	1.48
AD GWAS	AD Hallmark	1.00	2.14	2.71	2.23	2.12

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	0.03	4.88	63.45	13.79	12.21
AD GWAS	AD Hallmark	0.02	22.38	7.79	0.61	7.47

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	23	20	EPHA1;CD2AP;ZCWPW1