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	2.15e-01	3.81e-01	7.60e-02	4.56e-08
GS Exclusive	gene_list	3.55e-05	1.76e-01	3.72e-02	5.34e-02
gene_list Exclusive	GS Exclusive	1.88e-01	4.45e-01	1.04e-01	4.70e-08
GS Exclusive	gene_list Exclusive	3.72e-05	1.75e-01	6.05e-02	5.76e-02
gene_list Exclusive	Overlap	5.30e-01	7.93e-01	6.11e-01	7.73e-01
GS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	9.62e-15	4.20e-12	9.71e-22	5.16e-17



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	0.69	-0.11	0.52	0.07	5.32
GS Exclusive	gene_list	0.52	-0.38	-1.28	-1.29	0.91
gene_list Exclusive	GS Exclusive	0.69	-0.18	0.50	0.09	5.30
GS Exclusive	gene_list Exclusive	0.52	-0.39	-1.47	-1.43	0.91
gene_list Exclusive	Overlap	0.54	-0.50	-0.08	-0.59	0.19
GS Exclusive	Overlap	1.00	2.26	1.59	1.56	1.57
Overlap	Exclusives	0.69	2.03	6.14	2.20	9.15

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	-0.98	-1.07	-0.70	3.04
GS Exclusive	gene_list	0.01	1.92	0.14	0.22	0.88
gene_list Exclusive	GS Exclusive	0.00	-1.09	-1.07	-0.66	3.54
GS Exclusive	gene_list Exclusive	0.01	0.27	-0.49	-0.76	0.24
gene_list Exclusive	Overlap	0.00	-0.36	-0.34	-0.26	-0.20
GS Exclusive	Overlap	0.05	507.69	144.56	159.03	105.91
Overlap	Exclusives	0.03	5.01	17.19	5.92	17.54

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	125	125	
GS Exclusive	54	54	
Overlap	1	1