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)
125 genes	12GS	4.37e-02	2.48e-02	7.64e-05	5.39e-07
12GS	125 genes	5.80e-01	6.94e-01	1.13e-09	1.90e-03



Evaluating how well 125 genes genes are linked to 12GS 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)
125 genes	12GS	0.91	1.91	4.15	2.70	5.12
12GS	125 genes	0.58	0.59	0.00	0.35	2.73

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)
125 genes	12GS	0.00	0.08	4.01	2.09	2.80
12GS	125 genes	0.01	3.29	1.57	2.25	5.04

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	 
125 genes	125	125	
12GS	12	12