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	1.46e-01	4.21e-01	7.45e-14	5.27e-14
GS Exclusive	gene_list	9.04e-10	2.37e-01	1.85e-14	4.13e-14
gene_list Exclusive	GS Exclusive	6.89e-02	4.39e-01	1.71e-13	8.95e-13
GS Exclusive	gene_list Exclusive	5.52e-10	3.02e-01	3.35e-13	1.90e-13
gene_list Exclusive	Overlap	5.02e-01	7.88e-02	3.54e-03	8.12e-03
GS Exclusive	Overlap	1.38e-03	4.63e-03	1.38e-03	1.38e-03
Overlap	Exclusives	9.88e-05	4.50e-06	4.67e-60	9.04e-36



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	0.82	1.70	2.60	2.23	7.69
GS Exclusive	gene_list	0.66	-1.42	1.73	1.92	10.36
gene_list Exclusive	GS Exclusive	0.81	1.78	2.42	2.31	7.63
GS Exclusive	gene_list Exclusive	0.66	-1.58	1.38	1.78	8.86
gene_list Exclusive	Overlap	0.94	0.68	0.72	1.47	2.65
GS Exclusive	Overlap	1.00	2.36	2.17	2.79	3.03
Overlap	Exclusives	0.73	2.44	5.57	2.38	13.95

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	0.15	-8.20	2.17	5.41
GS Exclusive	gene_list	0.03	-0.22	2.13	4.42	13.40
gene_list Exclusive	GS Exclusive	0.01	0.25	-8.62	2.29	4.48
GS Exclusive	gene_list Exclusive	0.02	-1.10	1.06	2.92	9.46
gene_list Exclusive	Overlap	0.00	1.54	2.41	4.45	0.20
GS Exclusive	Overlap	0.04	62.94	4.70	167.18	145.36
Overlap	Exclusives	0.06	10.34	21.40	10.70	31.83

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	287	287	
GS Exclusive	52	52	
Overlap	3	3