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	1.29e-05	3.22e-07	7.88e-13	8.56e-18
GS Exclusive	gene_list	5.08e-16	2.95e-05	1.82e-33	6.28e-23
gene_list Exclusive	GS Exclusive	3.03e-04	1.75e-06	9.13e-11	4.88e-17
GS Exclusive	gene_list Exclusive	2.25e-15	8.23e-05	2.48e-32	1.32e-23
gene_list Exclusive	Overlap	1.02e-02	1.96e-02	1.02e-02	1.18e-02
GS Exclusive	Overlap	1.69e-04	2.45e-04	1.69e-04	2.81e-04
Overlap	Exclusives	3.26e-36	9.43e-16	7.64e-142	1.16e-57



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	0.84	1.82	5.43	2.93	9.49
GS Exclusive	gene_list	0.63	2.40	5.08	2.11	11.99
gene_list Exclusive	GS Exclusive	0.84	1.87	5.83	2.93	7.84
GS Exclusive	gene_list Exclusive	0.63	2.67	4.65	2.52	11.03
gene_list Exclusive	Overlap	0.91	0.39	2.73	1.69	3.22
GS Exclusive	Overlap	0.99	2.46	3.07	3.43	3.61
Overlap	Exclusives	0.69	2.99	12.08	1.59	19.76

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	-1.48	8.82	0.36	18.64
GS Exclusive	gene_list	0.07	4.47	11.33	4.22	21.83
gene_list Exclusive	GS Exclusive	0.01	-1.87	6.49	0.03	16.77
GS Exclusive	gene_list Exclusive	0.06	4.47	9.62	4.24	18.46
gene_list Exclusive	Overlap	0.00	2.36	12.33	6.39	3.53
GS Exclusive	Overlap	0.04	50.69	120.98	227.27	5.93
Overlap	Exclusives	0.10	10.63	33.00	4.00	48.96

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	727	725	MRPL23;FOLH1B
GS Exclusive	51	51	
Overlap	4	4