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	tier1_31	2.96e-03	1.15e-03	6.00e-05	1.00e-06
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3	2.85e-01	1.99e-01	9.28e-02	4.79e-02
Regulome_R4_selected2_balance_z3 Exclusive	tier1_31 Exclusive	1.72e-03	1.47e-03	1.81e-04	4.74e-05
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	4.73e-01	4.80e-01	3.78e-01	2.19e-01
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	6.56e-01	8.07e-01	3.48e-01	1.74e-02
tier1_31 Exclusive	Overlap	9.14e-09	1.85e-04	2.30e-07	7.09e-06
Overlap	Exclusives	1.42e-03	3.04e-03	2.37e-16	1.62e-03



Evaluating how well Regulome_R4_selected2_balance_z3 genes are linked to tier1_31 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	tier1_31	0.77	2.60	4.41	3.37	5.04
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3	0.56	1.66	1.99	1.84	2.93
Regulome_R4_selected2_balance_z3 Exclusive	tier1_31 Exclusive	0.77	2.88	4.78	2.76	4.93
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	0.55	1.41	1.31	1.11	2.12
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	0.82	0.84	0.52	1.25	2.15
tier1_31 Exclusive	Overlap	0.99	2.95	2.38	2.56	3.23
Overlap	Exclusives	0.60	2.01	3.68	2.42	4.32

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	tier1_31	0.01	4.42	5.93	5.07	5.83
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3	0.01	5.56	6.62	6.54	9.27
Regulome_R4_selected2_balance_z3 Exclusive	tier1_31 Exclusive	0.00	3.37	5.77	5.29	2.32
tier1_31 Exclusive	Regulome_R4_selected2_balance_z3 Exclusive	0.01	3.22	2.55	2.15	4.24
Regulome_R4_selected2_balance_z3 Exclusive	Overlap	0.00	5.52	2.34	8.84	3.47
tier1_31 Exclusive	Overlap	0.03	88.26	22.98	52.78	4.18
Overlap	Exclusives	0.04	25.91	34.52	25.91	25.22

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	158	154	AC005779.2;PRAMEF15;TNFSF12-TNFSF13;AC107871.1
tier1_31 Exclusive	27	26	MS4A
Overlap	4	4