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)
Sigma coding_control1 Exclusive	Tier2_gs	5.31e-01	3.33e-01	6.24e-01	2.77e-02
Tier2_gs Exclusive	Sigma coding_control1	3.37e-01	8.52e-01	4.72e-03	6.03e-01
Sigma coding_control1 Exclusive	Tier2_gs Exclusive	5.50e-01	2.96e-01	5.40e-01	2.38e-02
Tier2_gs Exclusive	Sigma coding_control1 Exclusive	4.36e-01	8.89e-01	3.96e-03	8.06e-01
Sigma coding_control1 Exclusive	Overlap	8.12e-01	5.94e-01	7.52e-01	4.55e-01
Tier2_gs Exclusive	Overlap	1.98e-02	5.94e-02	5.94e-02	1.98e-02
Overlap	Exclusives	9.21e-03	5.68e-01	4.02e-01	7.80e-02



Evaluating how well Sigma coding_control1 genes are linked to Tier2_gs 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)
Sigma coding_control1 Exclusive	Tier2_gs	0.64	1.19	1.82	0.93	2.95
Tier2_gs Exclusive	Sigma coding_control1	0.52	1.72	0.72	0.67	0.97
Sigma coding_control1 Exclusive	Tier2_gs Exclusive	0.65	1.18	1.49	1.12	3.74
Tier2_gs Exclusive	Sigma coding_control1 Exclusive	0.52	1.31	0.71	0.57	0.73
Sigma coding_control1 Exclusive	Overlap	0.21	-0.53	-0.78	-0.68	-0.94
Tier2_gs Exclusive	Overlap	0.99	2.17	2.26	2.15	1.61
Overlap	Exclusives	0.55	0.83	1.18	1.13	2.44

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)
Sigma coding_control1 Exclusive	Tier2_gs	0.01	2.01	6.46	2.13	1.10
Tier2_gs Exclusive	Sigma coding_control1	0.02	20.23	15.54	7.53	10.86
Sigma coding_control1 Exclusive	Tier2_gs Exclusive	0.01	2.51	4.44	2.71	1.08
Tier2_gs Exclusive	Sigma coding_control1 Exclusive	0.02	15.39	15.13	14.29	11.71
Sigma coding_control1 Exclusive	Overlap	0.00	-0.33	-0.40	-0.24	-0.25
Tier2_gs Exclusive	Overlap	0.00	6.99	2.24	1.22	8.86
Overlap	Exclusives	0.01	0.99	2.69	1.50	1.78

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	 
Sigma coding_control1 Exclusive	153	147	AC099850.2;AC011195.2;CHURC1-FNTB;AC093155.3;TNFSF12-TNFSF13;RTEL1-TNFRSF6B
Tier2_gs Exclusive	45	42	TNSF13;TNSF12;IGH
Overlap	1	1