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	5.98e-07	3.57e-06	1.13e-11	1.07e-13
GS Exclusive	gene_list	2.26e-06	4.75e-05	3.31e-19	4.87e-12
gene_list Exclusive	GS Exclusive	2.62e-06	5.87e-06	3.62e-11	3.28e-13
GS Exclusive	gene_list Exclusive	5.68e-06	6.05e-05	2.68e-17	4.61e-12
gene_list Exclusive	Overlap	9.92e-02	1.18e-01	9.92e-02	1.05e-01
GS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	1.41e-43	2.26e-31	3.33e-62	1.11e-53



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	0.83	1.61	5.90	2.70	7.96
GS Exclusive	gene_list	0.69	3.34	6.07	3.21	8.70
gene_list Exclusive	GS Exclusive	0.83	1.56	5.37	2.97	8.16
GS Exclusive	gene_list Exclusive	0.69	3.05	6.11	2.97	9.27
gene_list Exclusive	Overlap	0.98	1.37	1.31	1.84	1.78
GS Exclusive	Overlap	1.00	1.99	1.91	1.70	1.90
Overlap	Exclusives	0.82	2.86	13.28	2.75	18.86

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	0.01	-0.61	8.23	2.61	17.24
GS Exclusive	gene_list	0.03	6.54	13.32	8.67	19.09
gene_list Exclusive	GS Exclusive	0.01	-0.71	6.23	3.64	10.59
GS Exclusive	gene_list Exclusive	0.02	2.67	6.89	4.51	12.73
gene_list Exclusive	Overlap	0.00	3.13	2.42	10.68	2.16
GS Exclusive	Overlap	1.00	11151.60	16584.16	803.48	1358.17
Overlap	Exclusives	0.06	6.94	40.62	6.55	62.39

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	195	195	
GS Exclusive	54	54	
Overlap	1	1