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_balanced Exclusive	Regulome_R4_selected2	1.41e-01	1.96e-01	6.49e-02	1.35e-02
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced	3.70e-01	4.27e-01	4.00e-01	2.39e-01
Regulome_R4_selected2_balanced Exclusive	Regulome_R4_selected2 Exclusive	6.62e-01	8.53e-01	5.00e-01	6.60e-01
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced Exclusive	8.41e-01	8.95e-01	8.22e-01	4.46e-01
Regulome_R4_selected2_balanced Exclusive	Overlap	2.06e-01	2.62e-01	1.22e-01	8.57e-03
Regulome_R4_selected2 Exclusive	Overlap	2.55e-01	2.83e-01	1.50e-01	4.57e-01
Overlap	Exclusives	4.79e-01	6.87e-01	6.56e-01	7.98e-01



Evaluating how well Regulome_R4_selected2_balanced genes are linked to Regulome_R4_selected2 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_balanced Exclusive	Regulome_R4_selected2	0.56	2.48	2.07	1.92	2.56
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced	0.52	-0.56	-0.68	-0.31	1.07
Regulome_R4_selected2_balanced Exclusive	Regulome_R4_selected2 Exclusive	0.52	1.09	0.78	0.96	0.85
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced Exclusive	0.54	0.68	0.58	0.87	1.02
Regulome_R4_selected2_balanced Exclusive	Overlap	0.58	1.77	1.84	1.85	3.20
Regulome_R4_selected2 Exclusive	Overlap	0.52	-0.94	-1.21	-1.25	0.72
Overlap	Exclusives	0.50	-0.36	-0.30	-0.25	-0.16

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_balanced Exclusive	Regulome_R4_selected2	0.01	1.11	0.37	1.02	1.57
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced	0.01	-0.79	-0.89	-0.50	-0.02
Regulome_R4_selected2_balanced Exclusive	Regulome_R4_selected2 Exclusive	0.00	0.06	-0.16	0.09	0.04
Regulome_R4_selected2 Exclusive	Regulome_R4_selected2_balanced Exclusive	0.00	-0.08	0.20	-0.07	0.30
Regulome_R4_selected2_balanced Exclusive	Overlap	0.01	0.77	0.75	0.97	0.97
Regulome_R4_selected2 Exclusive	Overlap	0.01	-1.01	-1.34	-1.20	-0.15
Overlap	Exclusives	0.01	-0.06	-0.25	0.05	-0.16

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_balanced Exclusive	50	49	AC107871.1
Regulome_R4_selected2 Exclusive	72	68	TMEM191C;LINC02210-CRHR1;TAF11L13;AL451062.3
Overlap	112	109	TNFSF12-TNFSF13;PRAMEF15;AC005779.2