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 Regulome_R4_control1 Exclusive	Tier2_gs	9.58e-01	9.03e-01	9.84e-01	2.07e-01
Tier2_gs Exclusive	Sigma Regulome_R4_control1	6.43e-01	6.60e-01	5.05e-04	2.39e-01
Sigma Regulome_R4_control1 Exclusive	Tier2_gs Exclusive	9.49e-01	9.14e-01	9.86e-01	1.70e-01
Tier2_gs Exclusive	Sigma Regulome_R4_control1 Exclusive	6.82e-01	6.07e-01	8.10e-04	1.66e-01
Sigma Regulome_R4_control1 Exclusive	Overlap	8.51e-01	6.34e-01	6.73e-01	2.97e-01
Tier2_gs Exclusive	Overlap	6.53e-01	7.13e-01	8.12e-01	9.31e-01
Overlap	Exclusives	7.29e-01	9.48e-01	2.44e-09	1.60e-01



Evaluating how well Sigma Regulome_R4_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 Regulome_R4_control1 Exclusive	Tier2_gs	0.60	-0.36	0.08	-0.01	2.18
Tier2_gs Exclusive	Sigma Regulome_R4_control1	0.53	0.62	0.57	0.58	1.25
Sigma Regulome_R4_control1 Exclusive	Tier2_gs Exclusive	0.59	-0.42	-0.05	-0.24	2.12
Tier2_gs Exclusive	Sigma Regulome_R4_control1 Exclusive	0.53	0.59	0.53	0.20	1.20
Sigma Regulome_R4_control1 Exclusive	Overlap	0.83	0.42	0.73	0.59	1.14
Tier2_gs Exclusive	Overlap	0.54	-0.43	-0.52	-0.65	0.12
Overlap	Exclusives	0.53	-0.18	0.06	0.07	2.15

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 Regulome_R4_control1 Exclusive	Tier2_gs	0.00	0.64	1.61	1.09	0.82
Tier2_gs Exclusive	Sigma Regulome_R4_control1	0.01	0.10	-0.13	0.15	0.40
Sigma Regulome_R4_control1 Exclusive	Tier2_gs Exclusive	0.00	0.32	1.65	0.60	4.30
Tier2_gs Exclusive	Sigma Regulome_R4_control1 Exclusive	0.01	0.37	-0.17	-0.11	0.32
Sigma Regulome_R4_control1 Exclusive	Overlap	0.00	-0.20	-0.06	-0.18	-0.01
Tier2_gs Exclusive	Overlap	0.00	-0.48	-0.54	-0.43	-0.26
Overlap	Exclusives	0.01	-0.12	-0.02	-0.08	1.74

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 Regulome_R4_control1 Exclusive	183	178	MRPL23;PRAMEF15;AL451062.3;ZNF511-PRAP1;AC005779.2
Tier2_gs Exclusive	45	42	TNSF12;TNSF13;IGH
Overlap	1	1