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 Exclusive	Sigma_EA_R4	3.81e-01	2.67e-01	1.34e-01	4.23e-01
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4	3.26e-01	7.55e-01	4.93e-01	1.58e-01
Sigma_Regulome_R4 Exclusive	Sigma_EA_R4 Exclusive	5.07e-01	4.00e-01	2.09e-01	4.29e-01
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4 Exclusive	2.44e-01	4.39e-01	3.62e-01	7.13e-02
Sigma_Regulome_R4 Exclusive	Overlap	7.81e-02	9.30e-02	7.67e-02	1.43e-01
Sigma_EA_R4 Exclusive	Overlap	9.63e-01	6.83e-01	7.28e-01	4.08e-01
Overlap	Exclusives	1.57e-01	4.95e-01	1.72e-02	1.78e-01



Evaluating how well Sigma_Regulome_R4 genes are linked to Sigma_EA_R4 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 Exclusive	Sigma_EA_R4	0.53	1.19	1.26	1.40	0.66
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4	0.55	1.79	0.98	1.49	2.13
Sigma_Regulome_R4 Exclusive	Sigma_EA_R4 Exclusive	0.52	0.85	0.73	1.15	0.81
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4 Exclusive	0.56	1.80	1.36	1.81	2.22
Sigma_Regulome_R4 Exclusive	Overlap	0.59	1.90	1.62	1.60	1.20
Sigma_EA_R4 Exclusive	Overlap	0.43	-0.05	-0.74	-0.59	-0.72
Overlap	Exclusives	0.54	0.58	0.79	1.25	2.43

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 Exclusive	Sigma_EA_R4	0.01	3.16	0.92	1.92	1.51
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4	0.01	1.39	0.65	1.30	1.72
Sigma_Regulome_R4 Exclusive	Sigma_EA_R4 Exclusive	0.01	2.45	0.51	0.83	2.34
Sigma_EA_R4 Exclusive	Sigma_Regulome_R4 Exclusive	0.01	0.90	0.92	1.65	0.85
Sigma_Regulome_R4 Exclusive	Overlap	0.00	5.46	8.93	3.70	5.33
Sigma_EA_R4 Exclusive	Overlap	0.00	0.07	-0.38	-0.18	-0.11
Overlap	Exclusives	0.02	0.72	1.36	1.62	2.46

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 Exclusive	175	168	LINC02210-CRHR1;AC005779.2;TMEM191C;AL451062.3;TNFSF12-TNFSF13;PRAMEF15;TAF11L13
Sigma_EA_R4 Exclusive	107	105	EDDM13;CHURC1-FNTB
Overlap	9	9