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_R3_selected Exclusive	tier2_gs	1.65e-01	5.43e-01	3.89e-01	1.18e-01
tier2_gs Exclusive	Regulome_R3_selected	9.17e-01	9.70e-01	3.59e-02	6.30e-01
Regulome_R3_selected Exclusive	tier2_gs Exclusive	1.96e-01	5.35e-01	6.10e-01	1.73e-01
tier2_gs Exclusive	Regulome_R3_selected Exclusive	8.98e-01	9.32e-01	4.48e-02	5.90e-01
Regulome_R3_selected Exclusive	Overlap	6.27e-01	5.17e-01	1.11e-01	1.26e-01
tier2_gs Exclusive	Overlap	3.55e-03	3.55e-03	9.85e-04	4.43e-03
Overlap	Exclusives	1.87e-02	2.82e-03	1.02e-09	2.21e-05



Evaluating how well Regulome_R3_selected 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_R3_selected Exclusive	tier2_gs	0.60	-1.07	0.12	0.24	2.32
tier2_gs Exclusive	Regulome_R3_selected	0.53	0.48	0.17	0.23	1.32
Regulome_R3_selected Exclusive	tier2_gs Exclusive	0.58	-1.00	0.06	-0.47	1.66
tier2_gs Exclusive	Regulome_R3_selected Exclusive	0.53	0.18	-0.28	-0.10	1.15
Regulome_R3_selected Exclusive	Overlap	0.88	0.79	0.90	1.66	1.69
tier2_gs Exclusive	Overlap	0.98	1.85	2.64	2.22	2.29
Overlap	Exclusives	0.59	1.43	3.13	2.10	4.62

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_R3_selected Exclusive	tier2_gs	0.01	1.57	2.24	3.12	9.87
tier2_gs Exclusive	Regulome_R3_selected	0.01	1.99	3.02	2.83	4.95
Regulome_R3_selected Exclusive	tier2_gs Exclusive	0.01	1.35	2.44	1.92	4.74
tier2_gs Exclusive	Regulome_R3_selected Exclusive	0.01	1.96	2.33	2.22	4.21
Regulome_R3_selected Exclusive	Overlap	0.00	0.51	2.24	6.73	2.43
tier2_gs Exclusive	Overlap	0.01	14.22	22.02	27.85	7.44
Overlap	Exclusives	0.02	3.10	4.05	3.47	4.93

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_R3_selected Exclusive	150	142	CCDC187;2-Mar;MARCOL;9-Mar;AC010197.2;AC233992.2;SPECC1L-ADORA2A;CLEC20A
tier2_gs Exclusive	44	41	TNSF12;TNSF13;IGH
Overlap	2	2