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)
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs	3.98e-01	2.55e-01	1.46e-01	1.88e-03
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3	5.26e-01	1.00e-01	2.64e-04	1.20e-02
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs Exclusive	3.54e-01	2.51e-01	9.68e-02	2.44e-03
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	4.55e-01	6.05e-02	1.82e-04	9.96e-03
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	7.13e-01	6.14e-01	8.32e-01	5.94e-01
Tier2_gs Exclusive	Overlap	6.34e-01	8.12e-01	6.93e-01	1.00e+00
Overlap	Exclusives	2.52e-01	4.32e-01	6.62e-12	1.72e-01



Evaluating how well Regulome_R4_selected2_balance_z3 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)
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs	0.66	1.33	2.24	1.50	3.55
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3	0.56	1.99	1.75	1.82	2.90
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs Exclusive	0.66	1.71	2.15	1.65	4.15
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	0.56	2.11	1.80	1.95	2.48
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	0.75	-0.17	0.66	0.12	0.71
Tier2_gs Exclusive	Overlap	0.54	-0.50	-0.55	-0.79	0.06
Overlap	Exclusives	0.54	-0.50	-0.86	-0.42	1.89

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)
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs	0.01	0.88	3.83	1.99	3.58
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3	0.01	1.66	1.62	1.68	2.64
Regulome_R4_selected2_balance_z3 Exclusive	Tier2_gs Exclusive	0.01	0.79	3.66	2.41	6.13
Tier2_gs Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	0.01	1.67	1.32	1.30	2.19
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	0.00	-0.52	0.31	-0.31	-0.19
Tier2_gs Exclusive	Overlap	0.00	-0.34	-0.59	-0.56	-0.18
Overlap	Exclusives	0.01	-0.54	-1.13	-0.54	0.28

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	 
Regulome_R4_selected2_balance_z3 Exclusive	161	157	AC005779.2;AC107871.1;PRAMEF15;TNFSF12-TNFSF13
Tier2_gs Exclusive	45	42	IGH;TNSF13;TNSF12
Overlap	1	1