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	6.11e-01	4.09e-01	1.15e-11	2.21e-13
GS Exclusive	gene_list	2.34e-08	4.67e-01	6.13e-12	2.74e-11
gene_list Exclusive	GS Exclusive	5.47e-01	5.52e-01	1.77e-10	3.98e-12
GS Exclusive	gene_list Exclusive	1.23e-08	4.49e-01	1.32e-10	6.09e-10
gene_list Exclusive	Overlap	9.03e-01	9.31e-01	9.76e-02	1.40e-01
GS Exclusive	Overlap	1.69e-04	5.50e-04	1.69e-04	1.86e-04
Overlap	Exclusives	1.23e-04	8.36e-06	1.46e-41	4.97e-25



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	0.81	0.56	2.57	2.09	7.70
GS Exclusive	gene_list	0.65	-2.15	0.35	1.18	8.01
gene_list Exclusive	GS Exclusive	0.81	0.81	2.24	2.00	7.71
GS Exclusive	gene_list Exclusive	0.65	-2.41	0.43	1.08	8.11
gene_list Exclusive	Overlap	0.82	-0.74	-0.21	0.54	2.29
GS Exclusive	Overlap	1.00	2.69	2.46	2.90	3.42
Overlap	Exclusives	0.71	1.49	3.92	1.73	13.68

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	-0.87	-6.87	1.49	13.21
GS Exclusive	gene_list	0.02	0.32	1.94	4.35	9.93
gene_list Exclusive	GS Exclusive	0.01	-0.95	-7.72	1.21	2.28
GS Exclusive	gene_list Exclusive	0.02	-1.70	0.05	2.40	7.75
gene_list Exclusive	Overlap	0.00	-0.16	0.53	1.91	4.23
GS Exclusive	Overlap	0.08	65.13	10.82	255.94	202.96
Overlap	Exclusives	0.06	14.94	36.83	21.18	66.09

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	222	221	7-Sep
GS Exclusive	51	51	
Overlap	4	4