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	Gold_standard	3.76e-01	5.97e-01	4.58e-02	1.87e-09
Gold_standard Exclusive	gene_list	2.48e-01	5.70e-01	8.42e-01	4.91e-01
gene_list Exclusive	Gold_standard Exclusive	2.94e-01	4.46e-01	1.57e-02	2.90e-09
Gold_standard Exclusive	gene_list Exclusive	1.02e-01	6.10e-01	6.83e-01	2.86e-01
gene_list Exclusive	Overlap	1.41e-01	1.25e-01	1.05e-01	1.12e-01
Gold_standard Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	3.10e-27	6.34e-31	4.75e-29	6.00e-34



Evaluating how well gene_list genes are linked to Gold_standard 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	Gold_standard	0.67	-0.84	-0.56	-0.93	5.27
Gold_standard Exclusive	gene_list	0.48	-0.14	-0.65	-0.70	-0.30
gene_list Exclusive	Gold_standard Exclusive	0.67	-0.81	-0.86	-0.87	6.26
Gold_standard Exclusive	gene_list Exclusive	0.45	-1.03	-0.64	-0.86	-0.81
gene_list Exclusive	Overlap	0.98	1.55	2.10	1.69	1.64
Gold_standard Exclusive	Overlap	1.00	3.40	1.73	2.17	1.50
Overlap	Exclusives	0.84	3.08	11.18	3.11	11.87

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	Gold_standard	0.01	-0.70	-0.99	-0.81	2.62
Gold_standard Exclusive	gene_list	0.01	51.76	13.19	25.48	21.92
gene_list Exclusive	Gold_standard Exclusive	0.01	-0.73	-1.25	-0.88	3.60
Gold_standard Exclusive	gene_list Exclusive	0.00	-0.70	-0.37	-0.76	-0.77
gene_list Exclusive	Overlap	0.00	0.70	0.96	3.61	2.02
Gold_standard Exclusive	Overlap	0.25	8025.62	1336.98	875.24	341.30
Overlap	Exclusives	0.12	31.16	153.94	12.84	189.47

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	20	20	
Gold_standard Exclusive	86	86	
Overlap	1	1