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_Reactome Exclusive	T2D	1.32e-02	1.84e-01	1.40e-06	8.73e-05
T2D Exclusive	v3Train_Reactome	2.32e-04	1.33e-03	2.78e-14	2.04e-20
v3Train_Reactome Exclusive	T2D Exclusive	4.37e-02	4.75e-01	6.63e-06	1.12e-04
T2D Exclusive	v3Train_Reactome Exclusive	1.06e-04	1.39e-03	1.16e-12	9.29e-21
v3Train_Reactome Exclusive	Overlap	1.15e-02	2.67e-02	1.15e-02	1.49e-02
T2D Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.35e-02
Overlap	Exclusives	1.29e-24	3.42e-23	6.53e-81	5.08e-57



Evaluating how well v3Train_Reactome 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_Reactome Exclusive	T2D	0.70	0.19	0.87	1.01	4.82
T2D Exclusive	v3Train_Reactome	0.67	1.14	3.81	2.29	10.97
v3Train_Reactome Exclusive	T2D Exclusive	0.69	0.03	0.58	0.75	3.76
T2D Exclusive	v3Train_Reactome Exclusive	0.66	0.79	4.06	1.72	11.27
v3Train_Reactome Exclusive	Overlap	0.98	2.13	1.97	2.55	2.37
T2D Exclusive	Overlap	0.99	2.15	2.76	2.51	2.39
Overlap	Exclusives	0.76	3.29	13.08	3.61	20.56

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)
v3Train_Reactome Exclusive	T2D	0.01	2.01	4.78	2.76	10.74
T2D Exclusive	v3Train_Reactome	0.04	0.96	4.95	3.60	11.54
v3Train_Reactome Exclusive	T2D Exclusive	0.01	1.22	2.97	1.79	6.49
T2D Exclusive	v3Train_Reactome Exclusive	0.03	0.53	5.10	3.20	12.61
v3Train_Reactome Exclusive	Overlap	0.00	17.53	2.12	13.53	11.78
T2D Exclusive	Overlap	0.01	4.69	38.57	34.52	0.13
Overlap	Exclusives	0.07	4.87	26.23	7.74	44.08

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_Reactome Exclusive	384	383	CBS
T2D Exclusive	48	48	
Overlap	2	2