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_EA_R4_control1 Exclusive	Tier2_gs	4.28e-01	8.61e-02	1.44e-01	2.97e-03
Tier2_gs Exclusive	Sigma_EA_R4_control1	1.72e-01	6.36e-01	6.39e-03	2.50e-01
Sigma_EA_R4_control1 Exclusive	Tier2_gs Exclusive	3.85e-01	6.59e-02	9.54e-02	1.57e-03
Tier2_gs Exclusive	Sigma_EA_R4_control1 Exclusive	1.96e-01	6.00e-01	4.39e-03	2.83e-01
Sigma_EA_R4_control1 Exclusive	Overlap	3.56e-01	5.54e-01	4.36e-01	1.00e+00
Tier2_gs Exclusive	Overlap	1.98e-02	7.92e-02	1.98e-02	3.96e-02
Overlap	Exclusives	1.92e-03	4.52e-01	1.55e-01	1.15e-02



Evaluating how well Sigma_EA_R4_control1 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)
Sigma_EA_R4_control1 Exclusive	Tier2_gs	0.68	2.22	2.90	2.17	4.35
Tier2_gs Exclusive	Sigma_EA_R4_control1	0.55	1.95	1.01	1.25	1.81
Sigma_EA_R4_control1 Exclusive	Tier2_gs Exclusive	0.68	2.08	2.84	2.08	4.31
Tier2_gs Exclusive	Sigma_EA_R4_control1 Exclusive	0.55	1.91	0.83	1.06	1.67
Sigma_EA_R4_control1 Exclusive	Overlap	0.51	0.78	0.49	0.70	-0.02
Tier2_gs Exclusive	Overlap	0.99	2.37	1.91	2.05	1.75
Overlap	Exclusives	0.57	1.04	1.47	1.03	3.34

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_EA_R4_control1 Exclusive	Tier2_gs	0.01	3.90	8.56	5.82	9.69
Tier2_gs Exclusive	Sigma_EA_R4_control1	0.02	19.60	16.04	17.24	19.04
Sigma_EA_R4_control1 Exclusive	Tier2_gs Exclusive	0.01	4.13	10.77	4.76	12.98
Tier2_gs Exclusive	Sigma_EA_R4_control1 Exclusive	0.02	20.77	17.61	19.08	16.29
Sigma_EA_R4_control1 Exclusive	Overlap	0.00	-0.08	-0.18	-0.01	-0.35
Tier2_gs Exclusive	Overlap	0.00	10.45	1.75	4.56	1.60
Overlap	Exclusives	0.01	1.35	4.60	2.19	4.79

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_EA_R4_control1 Exclusive	136	131	TNFSF12-TNFSF13;TAF11L13;DUXB;CHURC1-FNTB;CCDC187
Tier2_gs Exclusive	45	42	TNSF13;IGH;TNSF12
Overlap	1	1