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)
Mu100 Exclusive	GS29	1.98e-01	7.27e-01	2.95e-07	2.28e-05
GS29 Exclusive	Mu100	1.61e-06	7.47e-01	7.23e-09	1.93e-12
Mu100 Exclusive	GS29 Exclusive	2.35e-01	6.61e-01	5.74e-06	3.88e-05
GS29 Exclusive	Mu100 Exclusive	1.99e-06	7.41e-01	2.31e-07	4.72e-12
Mu100 Exclusive	Overlap	3.83e-01	8.51e-01	1.15e-02	3.22e-02
GS29 Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.22e-02
Overlap	Exclusives	7.23e-04	5.66e-03	4.34e-38	6.31e-32



Evaluating how well Mu100 genes are linked to GS29 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)
Mu100 Exclusive	GS29	0.75	-1.36	0.43	1.21	4.92
GS29 Exclusive	Mu100	0.71	-1.98	-0.42	0.66	9.15
Mu100 Exclusive	GS29 Exclusive	0.74	-1.47	0.45	0.98	4.20
GS29 Exclusive	Mu100 Exclusive	0.70	-2.05	-0.42	0.14	8.82
Mu100 Exclusive	Overlap	0.92	-2.38	0.20	1.09	2.18
GS29 Exclusive	Overlap	1.00	1.38	2.19	2.29	2.59
Overlap	Exclusives	0.78	1.77	3.45	1.44	12.40

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)
Mu100 Exclusive	GS29	0.00	-1.37	-0.09	1.51	0.54
GS29 Exclusive	Mu100	0.02	-0.50	0.47	3.60	11.35
Mu100 Exclusive	GS29 Exclusive	0.00	-1.45	-0.00	1.03	4.76
GS29 Exclusive	Mu100 Exclusive	0.02	-0.92	-0.50	1.61	7.51
Mu100 Exclusive	Overlap	0.00	-1.19	-0.36	0.45	0.89
GS29 Exclusive	Overlap	0.04	23.35	128.65	155.07	30.75
Overlap	Exclusives	0.04	7.55	11.34	4.91	36.50

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	 
Mu100 Exclusive	149	148	
GS29 Exclusive	27	27	
Overlap	2	2