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_STRING Exclusive	T2D	1.01e-01	6.15e-01	2.12e-02	5.76e-05
T2D Exclusive	v3Train_STRING	1.87e-02	4.66e-04	4.70e-07	1.25e-08
v3Train_STRING Exclusive	T2D Exclusive	1.41e-01	6.11e-01	3.80e-02	2.15e-04
T2D Exclusive	v3Train_STRING Exclusive	4.61e-02	4.87e-04	3.66e-06	1.36e-08
v3Train_STRING Exclusive	Overlap	3.31e-01	8.41e-02	1.18e-01	1.00e-02
T2D Exclusive	Overlap	1.38e-03	1.76e-03	1.38e-03	1.60e-03
Overlap	Exclusives	1.02e-06	5.35e-06	2.56e-82	1.85e-16



Evaluating how well v3Train_STRING 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_STRING Exclusive	T2D	0.69	0.64	1.05	0.73	4.58
T2D Exclusive	v3Train_STRING	0.57	1.76	3.05	1.95	4.98
v3Train_STRING Exclusive	T2D Exclusive	0.68	0.59	1.06	0.57	4.10
T2D Exclusive	v3Train_STRING Exclusive	0.57	1.67	2.88	1.67	4.90
v3Train_STRING Exclusive	Overlap	0.90	1.35	2.01	1.76	2.62
T2D Exclusive	Overlap	1.00	2.20	2.63	2.65	2.74
Overlap	Exclusives	0.62	2.88	7.34	1.82	9.11

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_STRING Exclusive	T2D	0.01	0.34	0.74	0.89	6.03
T2D Exclusive	v3Train_STRING	0.03	1.37	2.41	1.91	3.27
v3Train_STRING Exclusive	T2D Exclusive	0.01	0.35	0.91	0.64	0.98
T2D Exclusive	v3Train_STRING Exclusive	0.03	0.95	1.50	1.12	2.58
v3Train_STRING Exclusive	Overlap	0.00	0.08	1.02	0.56	0.28
T2D Exclusive	Overlap	0.04	76.67	74.43	169.82	56.68
Overlap	Exclusives	0.05	7.18	17.46	4.69	17.75

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_STRING Exclusive	440	440	
T2D Exclusive	47	47	
Overlap	3	3