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)
EAML_FDR01 Exclusive	Tier2-T2D	2.37e-01	1.74e-01	2.11e-01	4.75e-02
Tier2-T2D Exclusive	EAML_FDR01	1.44e-01	8.74e-01	2.94e-02	1.95e-01
EAML_FDR01 Exclusive	Tier2-T2D Exclusive	8.57e-01	7.86e-01	8.87e-01	4.58e-01
Tier2-T2D Exclusive	EAML_FDR01 Exclusive	1.10e-01	7.07e-01	1.56e-01	1.08e-01
EAML_FDR01 Exclusive	Overlap	1.89e-02	1.89e-02	3.69e-02	9.21e-03
Tier2-T2D Exclusive	Overlap	1.02e-02	1.02e-02	1.02e-02	1.02e-02
Overlap	Exclusives	4.62e-04	1.53e-01	4.06e-06	3.69e-01



Evaluating how well EAML_FDR01 genes are linked to Tier2-T2D 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)
EAML_FDR01 Exclusive	Tier2-T2D	0.68	1.74	2.07	1.93	2.61
Tier2-T2D Exclusive	EAML_FDR01	0.48	-0.52	-0.31	-0.14	-0.76
EAML_FDR01 Exclusive	Tier2-T2D Exclusive	0.61	0.61	0.81	0.93	1.39
Tier2-T2D Exclusive	EAML_FDR01 Exclusive	0.47	-1.08	-0.67	-0.46	-1.04
EAML_FDR01 Exclusive	Overlap	0.88	2.42	2.60	2.49	2.96
Tier2-T2D Exclusive	Overlap	0.88	3.12	2.96	2.81	2.64
Overlap	Exclusives	0.53	3.18	2.84	3.19	1.56

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)
EAML_FDR01 Exclusive	Tier2-T2D	0.00	1.25	0.38	2.48	0.71
Tier2-T2D Exclusive	EAML_FDR01	0.01	1.46	1.24	2.32	1.68
EAML_FDR01 Exclusive	Tier2-T2D Exclusive	0.00	-0.28	-0.32	0.03	0.17
Tier2-T2D Exclusive	EAML_FDR01 Exclusive	0.01	-0.18	-0.15	0.14	-0.28
EAML_FDR01 Exclusive	Overlap	0.00	8.79	8.27	5.70	0.29
Tier2-T2D Exclusive	Overlap	0.04	189.02	307.16	180.39	243.81
Overlap	Exclusives	0.01	7.75	7.04	9.25	4.37

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	 
EAML_FDR01 Exclusive	161	155	TSPY1;ZNF816-ZNF321P;AGAP9;GCSAML-AS1;C22orf46;IQANK1
Tier2-T2D Exclusive	12	12	
Overlap	4	4