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)
Controls	JLC	1.56e-03	2.24e-04	1.73e-04	3.48e-05
JLC	Controls	5.44e-03	1.59e-01	3.45e-02	1.69e-04



Evaluating how well Controls genes are linked to JLC 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)
Controls	JLC	0.89	2.69	4.60	2.36	4.26
JLC	Controls	0.61	0.53	1.51	0.23	4.29

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)
Controls	JLC	0.00	1.10	0.46	1.68	7.03
JLC	Controls	0.01	0.10	2.23	0.62	5.87

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	 
Controls	157	156	CTSL
JLC	13	10	NEMO;UNC93B;TRIF