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_combined Exclusive	Regulome_R4_selected2_Female_3	2.68e-01	9.44e-02	8.16e-02	2.67e-02
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined	1.52e-01	3.22e-01	1.14e-01	1.48e-01
Regulome_R4_selected2_combined Exclusive	Regulome_R4_selected2_Female_3 Exclusive	7.24e-01	6.12e-01	3.92e-01	2.25e-01
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined Exclusive	4.79e-01	6.56e-01	3.34e-01	5.78e-01
Regulome_R4_selected2_combined Exclusive	Overlap	7.05e-02	4.97e-02	3.84e-02	4.56e-03
Regulome_R4_selected2_Female_3 Exclusive	Overlap	2.77e-01	1.74e-01	5.88e-02	2.09e-02
Overlap	Exclusives	5.37e-02	5.05e-02	9.75e-05	1.23e-02



Evaluating how well Regulome_R4_selected2_combined genes are linked to Regulome_R4_selected2_Female_3 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_combined Exclusive	Regulome_R4_selected2_Female_3	0.57	1.44	2.48	1.48	2.32
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined	0.53	0.78	0.92	0.63	1.58
Regulome_R4_selected2_combined Exclusive	Regulome_R4_selected2_Female_3 Exclusive	0.54	0.98	1.13	0.67	1.24
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined Exclusive	0.51	-0.02	0.18	-0.24	0.61
Regulome_R4_selected2_combined Exclusive	Overlap	0.63	2.00	2.17	1.78	2.78
Regulome_R4_selected2_Female_3 Exclusive	Overlap	0.63	1.78	2.11	2.10	2.41
Overlap	Exclusives	0.56	2.36	2.37	2.99	3.30

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_combined Exclusive	Regulome_R4_selected2_Female_3	0.01	1.45	2.09	0.49	0.77
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined	0.01	1.16	0.50	0.85	0.78
Regulome_R4_selected2_combined Exclusive	Regulome_R4_selected2_Female_3 Exclusive	0.00	-0.05	0.40	-0.36	-0.01
Regulome_R4_selected2_Female_3 Exclusive	Regulome_R4_selected2_combined Exclusive	0.01	0.45	-0.01	0.06	0.26
Regulome_R4_selected2_combined Exclusive	Overlap	0.00	2.62	2.95	0.40	2.88
Regulome_R4_selected2_Female_3 Exclusive	Overlap	0.00	1.40	1.70	1.43	0.81
Overlap	Exclusives	0.02	2.93	3.54	4.03	3.51

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_combined Exclusive	149	143	TAF11L13;AL451062.3;TNFSF12-TNFSF13;LINC02210-CRHR1;TMEM191C;AC005779.2
Regulome_R4_selected2_Female_3 Exclusive	78	78	
Overlap	35	34	PRAMEF15