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)
1000run1_2_5_297 Exclusive	ad_gs_25	7.83e-04	8.09e-04	1.35e-04	4.30e-06
ad_gs_25 Exclusive	1000run1_2_5_297	4.44e-01	3.31e-02	5.21e-05	8.87e-05
1000run1_2_5_297 Exclusive	ad_gs_25 Exclusive	2.17e-03	9.26e-04	1.51e-04	4.02e-05
ad_gs_25 Exclusive	1000run1_2_5_297 Exclusive	3.29e-01	5.43e-02	3.84e-04	7.97e-05
1000run1_2_5_297 Exclusive	Overlap	3.57e-01	4.24e-01	2.82e-01	2.28e-02
ad_gs_25 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	1.23e-01	6.44e-02	9.66e-28	5.13e-04



Evaluating how well 1000run1_2_5_297 genes are linked to ad_gs_25 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)
1000run1_2_5_297 Exclusive	ad_gs_25	0.82	3.19	4.88	2.79	4.81
ad_gs_25 Exclusive	1000run1_2_5_297	0.57	2.17	2.71	1.93	3.59
1000run1_2_5_297 Exclusive	ad_gs_25 Exclusive	0.81	3.03	4.67	2.61	5.33
ad_gs_25 Exclusive	1000run1_2_5_297 Exclusive	0.56	1.76	2.15	1.53	3.91
1000run1_2_5_297 Exclusive	Overlap	0.91	2.10	1.74	1.65	2.48
ad_gs_25 Exclusive	Overlap	1.00	3.00	2.26	2.51	3.24
Overlap	Exclusives	0.58	2.60	2.64	1.75	4.89

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)
1000run1_2_5_297 Exclusive	ad_gs_25	0.01	5.45	7.57	4.46	8.40
ad_gs_25 Exclusive	1000run1_2_5_297	0.02	2.95	4.88	4.27	4.80
1000run1_2_5_297 Exclusive	ad_gs_25 Exclusive	0.01	7.19	6.80	5.36	4.14
ad_gs_25 Exclusive	1000run1_2_5_297 Exclusive	0.02	2.27	3.25	2.43	3.75
1000run1_2_5_297 Exclusive	Overlap	0.00	0.86	2.29	1.68	1.55
ad_gs_25 Exclusive	Overlap	0.03	29.78	46.32	102.82	110.71
Overlap	Exclusives	0.03	19.79	17.46	12.54	12.97

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	 
1000run1_2_5_297 Exclusive	294	294	
ad_gs_25 Exclusive	22	22	
Overlap	3	3