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	1.27e-04	1.36e-04	1.87e-10	6.31e-11
GS Exclusive	gene_list	3.61e-04	4.89e-04	4.45e-11	7.31e-11
gene_list Exclusive	GS Exclusive	8.89e-04	8.60e-04	3.12e-09	1.07e-10
GS Exclusive	gene_list Exclusive	2.21e-03	6.32e-04	2.60e-10	6.79e-11
gene_list Exclusive	Overlap	1.49e-02	4.42e-02	1.22e-02	2.00e-02
GS Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.15e-02
Overlap	Exclusives	6.97e-21	2.72e-20	3.89e-39	4.91e-39



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	0.80	1.50	5.51	2.14	8.10
GS Exclusive	gene_list	0.74	3.23	5.24	3.17	7.08
gene_list Exclusive	GS Exclusive	0.80	1.13	4.49	1.88	8.38
GS Exclusive	gene_list Exclusive	0.74	2.86	5.47	3.28	8.61
gene_list Exclusive	Overlap	0.93	2.07	1.88	1.67	2.43
GS Exclusive	Overlap	1.00	3.25	2.60	2.24	2.35
Overlap	Exclusives	0.85	2.85	13.16	2.68	15.20

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	-0.19	5.08	2.81	10.15
GS Exclusive	gene_list	0.03	12.85	39.18	21.17	43.59
gene_list Exclusive	GS Exclusive	0.01	-0.39	1.29	2.26	17.01
GS Exclusive	gene_list Exclusive	0.01	0.18	5.34	2.71	10.30
gene_list Exclusive	Overlap	0.00	0.24	1.58	1.96	2.88
GS Exclusive	Overlap	1.00	12497.30	12985.00	3614.94	3775.62
Overlap	Exclusives	0.07	19.00	88.85	14.52	63.86

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	80	80	
GS Exclusive	53	53	
Overlap	2	2