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)
gene_list Exclusive	GS	5.23e-02	3.42e-01	6.79e-02	7.16e-07
GS Exclusive	gene_list	7.21e-01	4.88e-01	3.95e-01	6.79e-01
gene_list Exclusive	GS Exclusive	2.27e-02	3.66e-01	1.22e-02	1.94e-06
GS Exclusive	gene_list Exclusive	8.71e-01	6.02e-01	4.31e-01	6.60e-01
gene_list Exclusive	Overlap	1.85e-01	9.92e-02	2.17e-01	1.75e-01
GS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	1.78e-14	6.51e-17	4.08e-19	1.02e-21



Evaluating how well gene_list genes are linked to GS 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)
gene_list Exclusive	GS	0.66	-0.82	0.57	-0.56	4.16
GS Exclusive	gene_list	0.54	2.57	0.95	0.53	0.66
gene_list Exclusive	GS Exclusive	0.66	-1.10	0.59	-0.80	4.26
GS Exclusive	gene_list Exclusive	0.51	2.34	0.43	0.28	0.38
gene_list Exclusive	Overlap	0.92	1.43	1.97	1.35	1.33
GS Exclusive	Overlap	1.00	2.14	1.75	1.60	1.53
Overlap	Exclusives	0.82	1.61	7.50	2.15	8.83

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)
gene_list Exclusive	GS	0.00	-0.63	0.57	-0.53	1.99
GS Exclusive	gene_list	0.00	12.44	7.13	3.74	3.56
gene_list Exclusive	GS Exclusive	0.00	-0.83	0.57	-0.58	1.57
GS Exclusive	gene_list Exclusive	0.00	1.41	-0.38	-0.57	-0.45
gene_list Exclusive	Overlap	0.00	0.67	6.64	0.09	-0.07
GS Exclusive	Overlap	0.05	216.48	175.12	78.39	50.62
Overlap	Exclusives	0.03	5.64	41.50	6.66	44.09

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	 
gene_list Exclusive	20	20	
GS Exclusive	54	54	
Overlap	1	1