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)
Mu500 Exclusive	GoldStandard29	6.26e-01	2.25e-01	1.30e-07	1.45e-07
GoldStandard29 Exclusive	Mu500	2.09e-06	5.08e-02	1.30e-12	8.59e-14
Mu500 Exclusive	GoldStandard29 Exclusive	6.13e-01	1.78e-01	5.64e-07	2.10e-06
GoldStandard29 Exclusive	Mu500 Exclusive	1.14e-06	1.79e-01	1.04e-11	1.91e-12
Mu500 Exclusive	Overlap	8.41e-01	4.92e-01	1.68e-03	5.76e-03
GoldStandard29 Exclusive	Overlap	1.38e-03	1.38e-03	1.38e-03	1.38e-03
Overlap	Exclusives	1.59e-06	3.36e-05	3.58e-28	1.28e-35



Evaluating how well Mu500 genes are linked to GoldStandard29 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)
Mu500 Exclusive	GoldStandard29	0.78	-0.41	1.78	1.63	5.18
GoldStandard29 Exclusive	Mu500	0.72	-1.52	0.70	0.74	8.84
Mu500 Exclusive	GoldStandard29 Exclusive	0.77	-0.35	1.68	1.48	4.93
GoldStandard29 Exclusive	Mu500 Exclusive	0.72	-1.71	-0.05	0.59	9.29
Mu500 Exclusive	Overlap	0.92	0.73	1.26	1.76	2.90
GoldStandard29 Exclusive	Overlap	1.00	1.77	2.90	2.84	2.95
Overlap	Exclusives	0.79	2.04	4.58	1.53	14.19

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)
Mu500 Exclusive	GoldStandard29	0.01	-0.70	0.95	2.33	5.60
GoldStandard29 Exclusive	Mu500	0.02	0.21	3.21	4.86	12.35
Mu500 Exclusive	GoldStandard29 Exclusive	0.00	-0.61	0.86	2.73	0.61
GoldStandard29 Exclusive	Mu500 Exclusive	0.02	-0.39	0.83	3.11	7.86
Mu500 Exclusive	Overlap	0.00	-0.32	0.10	1.55	1.47
GoldStandard29 Exclusive	Overlap	0.06	13.99	138.43	236.38	128.45
Overlap	Exclusives	0.04	8.24	16.27	6.92	52.06

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	 
Mu500 Exclusive	151	150	UTY
GoldStandard29 Exclusive	26	26	
Overlap	3	3