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)
GeneGroup1	GeneGroup2	1.51e-01	1.98e-02	6.63e-02	7.47e-09
GeneGroup2	GeneGroup1	2.82e-01	1.48e-01	5.97e-01	3.38e-01



Evaluating how well GeneGroup1 genes are linked to GeneGroup2 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)
GeneGroup1	GeneGroup2	0.71	0.78	3.41	0.82	6.38
GeneGroup2	GeneGroup1	0.44	-0.18	-1.27	-0.75	-0.50

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)
GeneGroup1	GeneGroup2	0.01	0.24	1.85	0.21	1.34
GeneGroup2	GeneGroup1	0.00	-0.18	-0.30	-0.52	-0.26

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	 
GeneGroup1	6	6	
GeneGroup2	68	64	C12ORF23;OPTN ;SIX1 ;MYOCOS