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)
10000run_2_4_353 Exclusive	ad_gs_25	1.64e-03	8.23e-04	4.35e-05	4.32e-07
ad_gs_25 Exclusive	10000run_2_4_353	4.27e-01	2.00e-01	2.35e-04	2.50e-04
10000run_2_4_353 Exclusive	ad_gs_25 Exclusive	2.10e-03	6.97e-04	9.88e-05	6.64e-06
ad_gs_25 Exclusive	10000run_2_4_353 Exclusive	4.83e-01	2.03e-01	1.42e-04	3.87e-04
10000run_2_4_353 Exclusive	Overlap	3.74e-01	3.82e-01	1.81e-01	1.14e-02
ad_gs_25 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-06
Overlap	Exclusives	1.38e-01	7.46e-02	1.14e-31	1.25e-04



Evaluating how well 10000run_2_4_353 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)
10000run_2_4_353 Exclusive	ad_gs_25	0.82	3.28	5.87	3.29	6.08
ad_gs_25 Exclusive	10000run_2_4_353	0.56	1.67	1.86	1.97	4.58
10000run_2_4_353 Exclusive	ad_gs_25 Exclusive	0.80	3.11	4.01	3.01	5.10
ad_gs_25 Exclusive	10000run_2_4_353 Exclusive	0.56	1.52	1.92	1.67	3.94
10000run_2_4_353 Exclusive	Overlap	0.90	1.65	1.44	1.96	2.90
ad_gs_25 Exclusive	Overlap	1.00	2.32	2.24	2.98	2.78
Overlap	Exclusives	0.57	2.47	2.37	1.73	4.11

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)
10000run_2_4_353 Exclusive	ad_gs_25	0.01	5.23	8.53	4.77	12.17
ad_gs_25 Exclusive	10000run_2_4_353	0.02	2.94	3.89	4.72	5.73
10000run_2_4_353 Exclusive	ad_gs_25 Exclusive	0.00	4.94	7.96	6.57	3.03
ad_gs_25 Exclusive	10000run_2_4_353 Exclusive	0.02	2.04	2.59	2.27	4.41
10000run_2_4_353 Exclusive	Overlap	0.00	1.72	6.66	4.33	1.23
ad_gs_25 Exclusive	Overlap	0.03	60.39	67.76	184.28	44.86
Overlap	Exclusives	0.03	17.44	12.67	9.55	11.96

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	 
10000run_2_4_353 Exclusive	350	350	
ad_gs_25 Exclusive	22	22	
Overlap	3	3