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)
GeneGroup1 Exclusive	ad_gs_25	8.59e-01	8.77e-01	7.86e-01	1.12e-01
ad_gs_25 Exclusive	GeneGroup1	7.74e-01	4.37e-02	2.77e-02	8.87e-03
GeneGroup1 Exclusive	ad_gs_25 Exclusive	8.21e-01	7.85e-01	6.22e-01	9.82e-02
ad_gs_25 Exclusive	GeneGroup1 Exclusive	6.63e-01	4.96e-02	2.34e-02	2.84e-02
GeneGroup1 Exclusive	Overlap	3.50e-01	5.84e-01	3.98e-01	1.19e-01
ad_gs_25 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-06
Overlap	Exclusives	4.33e-02	1.15e-02	1.02e-15	1.51e-03



Evaluating how well GeneGroup1 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)
GeneGroup1 Exclusive	ad_gs_25	0.62	0.10	-0.47	-0.08	2.13
ad_gs_25 Exclusive	GeneGroup1	0.56	0.89	2.18	1.24	2.29
GeneGroup1 Exclusive	ad_gs_25 Exclusive	0.61	0.09	-0.37	-0.02	1.86
ad_gs_25 Exclusive	GeneGroup1 Exclusive	0.55	0.64	1.87	0.99	2.29
GeneGroup1 Exclusive	Overlap	0.75	0.72	-0.62	0.35	1.33
ad_gs_25 Exclusive	Overlap	1.00	3.43	2.35	2.79	3.14
Overlap	Exclusives	0.59	2.30	3.55	1.80	4.02

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)
GeneGroup1 Exclusive	ad_gs_25	0.00	-0.14	-0.77	-0.31	0.50
ad_gs_25 Exclusive	GeneGroup1	0.01	0.51	1.94	1.39	1.57
GeneGroup1 Exclusive	ad_gs_25 Exclusive	0.00	-0.21	-0.83	-0.21	0.03
ad_gs_25 Exclusive	GeneGroup1 Exclusive	0.01	-0.34	0.60	-0.11	0.73
GeneGroup1 Exclusive	Overlap	0.00	0.58	-0.18	0.22	2.77
ad_gs_25 Exclusive	Overlap	0.03	99.28	58.72	142.85	20.52
Overlap	Exclusives	0.02	18.92	24.68	17.64	15.73

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	 
GeneGroup1 Exclusive	138	138	
ad_gs_25 Exclusive	22	22	
Overlap	3	3