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	9.09e-01	8.99e-01	2.76e-01	7.96e-06
GS Exclusive	gene_list	2.36e-05	9.27e-01	2.90e-02	1.94e-01
gene_list Exclusive	GS Exclusive	8.84e-01	8.57e-01	1.55e-01	7.95e-06
GS Exclusive	gene_list Exclusive	1.91e-05	9.56e-01	6.33e-02	2.07e-01
gene_list Exclusive	Overlap	7.54e-01	5.40e-01	5.27e-01	5.40e-01
GS Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.15e-02
Overlap	Exclusives	1.19e-06	6.50e-05	2.84e-13	3.71e-05



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	0.68	0.17	0.16	-0.34	5.10
GS Exclusive	gene_list	0.48	1.47	-0.01	-0.46	-0.93
gene_list Exclusive	GS Exclusive	0.68	0.09	0.15	-0.46	4.41
GS Exclusive	gene_list Exclusive	0.47	0.82	-0.01	-0.94	-1.15
gene_list Exclusive	Overlap	0.57	-0.02	-0.23	-0.17	0.35
GS Exclusive	Overlap	1.00	3.74	2.32	2.30	2.58
Overlap	Exclusives	0.58	1.57	3.45	1.70	4.25

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	-0.02	-0.11	-0.57	3.23
GS Exclusive	gene_list	0.02	23.72	8.62	6.43	6.22
gene_list Exclusive	GS Exclusive	0.01	-0.13	-0.02	-0.66	4.08
GS Exclusive	gene_list Exclusive	0.01	1.09	0.07	-0.85	-1.01
gene_list Exclusive	Overlap	0.00	-0.32	-0.52	-0.43	-0.29
GS Exclusive	Overlap	0.57	7256.05	1345.28	178.03	1924.63
Overlap	Exclusives	0.03	9.47	21.83	9.28	14.83

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	194	192	PCDH11Y;PRAG1
GS Exclusive	53	53	
Overlap	2	2