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_2_563 Exclusive	ad_gs_25	7.20e-04	8.50e-04	7.95e-06	6.34e-08
ad_gs_25 Exclusive	10000run_2_2_563	2.10e-01	6.44e-03	2.32e-08	3.36e-08
10000run_2_2_563 Exclusive	ad_gs_25 Exclusive	1.08e-03	5.31e-04	1.19e-05	5.31e-07
ad_gs_25 Exclusive	10000run_2_2_563 Exclusive	2.63e-01	6.81e-03	1.69e-08	1.48e-07
10000run_2_2_563 Exclusive	Overlap	5.30e-01	7.89e-01	2.28e-01	2.94e-02
ad_gs_25 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-06
Overlap	Exclusives	2.60e-01	2.82e-02	1.35e-54	4.63e-09



Evaluating how well 10000run_2_2_563 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_2_563 Exclusive	ad_gs_25	0.84	4.45	4.91	3.34	5.35
ad_gs_25 Exclusive	10000run_2_2_563	0.57	2.35	4.02	2.68	6.14
10000run_2_2_563 Exclusive	ad_gs_25 Exclusive	0.83	4.60	5.85	3.74	4.45
ad_gs_25 Exclusive	10000run_2_2_563 Exclusive	0.57	2.48	3.47	2.69	5.10
10000run_2_2_563 Exclusive	Overlap	0.88	1.79	1.08	2.25	2.08
ad_gs_25 Exclusive	Overlap	1.00	2.91	2.09	3.17	2.94
Overlap	Exclusives	0.57	2.24	4.11	1.65	7.87

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)
10000run_2_2_563 Exclusive	ad_gs_25	0.01	7.09	8.57	6.16	1.15
ad_gs_25 Exclusive	10000run_2_2_563	0.04	3.66	6.28	4.45	8.56
10000run_2_2_563 Exclusive	ad_gs_25 Exclusive	0.01	7.66	10.02	5.95	0.80
ad_gs_25 Exclusive	10000run_2_2_563 Exclusive	0.04	3.03	5.01	3.84	5.66
10000run_2_2_563 Exclusive	Overlap	0.00	1.30	7.85	2.06	3.03
ad_gs_25 Exclusive	Overlap	0.03	147.58	52.54	180.71	57.60
Overlap	Exclusives	0.05	10.47	11.91	5.96	15.10

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_2_563 Exclusive	560	558	PTGES3L-AARSD1;STON1-GTF2A1L
ad_gs_25 Exclusive	22	22	
Overlap	3	3