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)
v2_Reactome Exclusive	T2D	3.20e-03	8.34e-03	1.80e-08	4.49e-06
T2D Exclusive	v2_Reactome	5.58e-04	4.70e-06	7.72e-15	1.48e-16
v2_Reactome Exclusive	T2D Exclusive	5.36e-03	3.20e-02	5.85e-08	1.39e-05
T2D Exclusive	v2_Reactome Exclusive	1.58e-03	1.53e-06	6.52e-15	4.77e-16
v2_Reactome Exclusive	Overlap	5.40e-01	1.33e-01	2.26e-01	2.10e-02
T2D Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.15e-02
Overlap	Exclusives	2.01e-24	9.28e-28	1.18e-155	7.83e-63



Evaluating how well v2_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)
v2_Reactome Exclusive	T2D	0.74	0.91	2.79	1.72	5.32
T2D Exclusive	v2_Reactome	0.66	2.03	5.90	2.05	10.73
v2_Reactome Exclusive	T2D Exclusive	0.73	0.88	2.19	1.82	5.28
T2D Exclusive	v2_Reactome Exclusive	0.66	1.86	5.86	2.42	11.88
v2_Reactome Exclusive	Overlap	0.96	1.74	1.62	1.66	2.27
T2D Exclusive	Overlap	0.99	1.64	1.97	2.41	2.67
Overlap	Exclusives	0.76	2.16	14.85	2.35	18.22

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)
v2_Reactome Exclusive	T2D	0.01	0.26	3.66	2.12	10.60
T2D Exclusive	v2_Reactome	0.03	2.26	6.81	3.38	12.45
v2_Reactome Exclusive	T2D Exclusive	0.01	1.10	2.49	2.00	1.40
T2D Exclusive	v2_Reactome Exclusive	0.03	1.72	7.11	3.73	13.51
v2_Reactome Exclusive	Overlap	0.01	-1.25	10.14	0.37	15.79
T2D Exclusive	Overlap	0.01	2.59	12.38	13.74	50.30
Overlap	Exclusives	0.06	3.32	21.12	3.25	30.59

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	 
v2_Reactome Exclusive	360	359	OPN1MW
T2D Exclusive	48	48	
Overlap	2	2