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)
91 Braak genes	AD_Tier2	3.95e-01	3.83e-01	1.29e-01	8.23e-03
AD_Tier2	91 Braak genes	8.86e-02	5.59e-01	3.89e-02	7.33e-01



Evaluating how well 91 Braak genes genes are linked to AD_Tier2 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)
91 Braak genes	AD_Tier2	0.66	1.16	1.98	1.72	3.47
AD_Tier2	91 Braak genes	0.51	-0.34	-0.28	0.03	0.25

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)
91 Braak genes	AD_Tier2	0.00	1.57	1.72	2.65	0.51
AD_Tier2	91 Braak genes	0.02	23.29	16.77	6.13	24.00

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	 
91 Braak genes	90	90	
AD_Tier2	46	43	TNSF12;IGH;TNSF13