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)
v3Train_EAW Exclusive	T2D	6.99e-01	5.27e-01	1.27e-10	1.11e-07
T2D Exclusive	v3Train_EAW	3.38e-05	5.38e-02	2.15e-12	1.14e-20
v3Train_EAW Exclusive	T2D Exclusive	8.29e-01	7.79e-01	5.48e-10	1.74e-06
T2D Exclusive	v3Train_EAW Exclusive	1.98e-05	1.72e-01	1.37e-11	7.34e-20
v3Train_EAW Exclusive	Overlap	3.24e-01	6.40e-01	3.22e-02	4.57e-02
T2D Exclusive	Overlap	1.30e-03	1.30e-03	1.30e-03	1.40e-03
Overlap	Exclusives	2.69e-09	5.33e-08	8.84e-51	8.49e-55



Evaluating how well v3Train_EAW genes are linked to 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)
v3Train_EAW Exclusive	T2D	0.74	1.95	1.90	1.95	5.94
T2D Exclusive	v3Train_EAW	0.69	-1.17	2.20	1.58	10.68
v3Train_EAW Exclusive	T2D Exclusive	0.73	1.83	1.78	2.04	5.21
T2D Exclusive	v3Train_EAW Exclusive	0.69	-1.19	1.75	1.44	10.51
v3Train_EAW Exclusive	Overlap	0.82	1.05	1.01	1.74	2.86
T2D Exclusive	Overlap	0.86	2.11	2.78	2.28	2.61
Overlap	Exclusives	0.77	4.50	7.64	2.66	16.42

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)
v3Train_EAW Exclusive	T2D	0.01	2.51	3.32	5.84	15.75
T2D Exclusive	v3Train_EAW	0.03	0.72	5.39	4.36	19.10
v3Train_EAW Exclusive	T2D Exclusive	0.01	2.81	3.07	4.63	2.30
T2D Exclusive	v3Train_EAW Exclusive	0.03	-0.29	2.45	3.40	13.16
v3Train_EAW Exclusive	Overlap	0.00	0.48	3.78	2.78	4.18
T2D Exclusive	Overlap	0.06	73.83	227.53	250.67	48.04
Overlap	Exclusives	0.06	13.97	25.97	11.83	34.96

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	 
v3Train_EAW Exclusive	262	261	SPANXB1
T2D Exclusive	45	45	
Overlap	5	5