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)
28_EAML_AD	GS_tier2	6.21e-03	9.08e-05	6.45e-05	1.66e-06
GS_tier2	28_EAML_AD	5.26e-06	2.04e-05	6.53e-08	2.83e-07



Evaluating how well 28_EAML_AD genes are linked to GS_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)
28_EAML_AD	GS_tier2	0.75	3.62	4.98	4.19	5.76
GS_tier2	28_EAML_AD	0.80	3.50	4.95	3.96	5.32

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)
28_EAML_AD	GS_tier2	0.01	8.47	2.12	15.07	19.12
GS_tier2	28_EAML_AD	0.01	5.67	4.90	21.08	12.02

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	 
28_EAML_AD	28	28	
GS_tier2	46	43	TNSF13;IGH;TNSF12