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)
EPI_v3Train_01 Exclusive	Tier1T2D	7.79e-01	6.51e-01	6.98e-01	8.90e-02
Tier1T2D Exclusive	EPI_v3Train_01	1.63e-01	9.83e-01	4.84e-13	6.80e-01
EPI_v3Train_01 Exclusive	Tier1T2D Exclusive	8.76e-01	9.51e-01	5.86e-01	2.72e-01
Tier1T2D Exclusive	EPI_v3Train_01 Exclusive	1.29e-01	8.73e-01	8.24e-10	4.81e-01
EPI_v3Train_01 Exclusive	Overlap	4.83e-01	5.47e-01	7.20e-01	4.65e-01
Tier1T2D Exclusive	Overlap	7.62e-04	7.62e-04	7.62e-04	1.04e-03
Overlap	Exclusives	7.49e-04	7.83e-02	4.87e-04	5.48e-01



Evaluating how well EPI_v3Train_01 genes are linked to Tier1T2D 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)
EPI_v3Train_01 Exclusive	Tier1T2D	0.58	0.01	0.18	-0.01	1.25
Tier1T2D Exclusive	EPI_v3Train_01	0.49	0.01	0.30	0.26	-0.43
EPI_v3Train_01 Exclusive	Tier1T2D Exclusive	0.59	-0.70	-0.40	-0.77	0.85
Tier1T2D Exclusive	EPI_v3Train_01 Exclusive	0.49	-0.12	-0.16	-0.21	-0.77
EPI_v3Train_01 Exclusive	Overlap	0.58	1.05	0.89	0.75	0.64
Tier1T2D Exclusive	Overlap	0.85	2.75	3.47	3.52	3.07
Overlap	Exclusives	0.52	2.25	2.47	1.48	0.83

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)
EPI_v3Train_01 Exclusive	Tier1T2D	0.00	-0.40	-0.68	-0.61	0.03
Tier1T2D Exclusive	EPI_v3Train_01	0.02	0.36	0.90	0.62	-0.07
EPI_v3Train_01 Exclusive	Tier1T2D Exclusive	0.00	-0.71	-1.25	-1.07	-0.10
Tier1T2D Exclusive	EPI_v3Train_01 Exclusive	0.02	-0.71	-0.70	-0.74	-1.20
EPI_v3Train_01 Exclusive	Overlap	0.00	0.23	0.40	0.03	-0.19
Tier1T2D Exclusive	Overlap	0.03	61.05	170.40	85.79	59.56
Overlap	Exclusives	0.02	2.39	3.21	1.85	1.54

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	 
EPI_v3Train_01 Exclusive	406	402	RNASE4;GCSAML-AS1;IQANK1;AC018554.3
Tier1T2D Exclusive	7	7	
Overlap	7	7