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	1.90e-01	2.51e-02	1.49e-03	2.80e-05
GS Exclusive	gene_list	8.02e-03	7.43e-06	4.99e-42	2.81e-36
gene_list Exclusive	GS Exclusive	2.82e-01	1.76e-02	2.67e-03	7.79e-05
GS Exclusive	gene_list Exclusive	1.03e-02	1.38e-05	1.01e-40	1.17e-35
gene_list Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	1.18e-01
GS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	4.12e-101	1.87e-41	2.67e-141	1.61e-73



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	0.77	0.64	2.23	0.81	4.24
GS Exclusive	gene_list	0.62	1.83	4.20	1.29	12.36
gene_list Exclusive	GS Exclusive	0.76	0.60	2.23	0.76	3.87
GS Exclusive	gene_list Exclusive	0.62	1.83	4.54	1.35	12.12
gene_list Exclusive	Overlap	0.96	1.23	1.50	1.44	1.53
GS Exclusive	Overlap	1.00	2.10	2.26	2.16	1.89
Overlap	Exclusives	0.71	3.46	15.41	2.17	20.09

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	-0.55	2.03	0.00	4.30
GS Exclusive	gene_list	0.05	1.38	3.69	1.53	10.73
gene_list Exclusive	GS Exclusive	0.00	-0.69	1.79	-0.11	2.45
GS Exclusive	gene_list Exclusive	0.05	1.58	3.81	1.43	8.24
gene_list Exclusive	Overlap	0.00	1.77	5.53	1.74	0.69
GS Exclusive	Overlap	0.02	94.05	149.27	80.12	114.89
Overlap	Exclusives	0.09	5.94	23.17	2.60	32.69

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	730	728	MRPL23;FOLH1B
GS Exclusive	19	19	
Overlap	1	1