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)
sigma352 Exclusive	GSfam	3.93e-01	3.96e-01	5.04e-01	3.22e-06
GSfam Exclusive	sigma352	1.96e-09	6.65e-01	1.54e-04	9.01e-01
sigma352 Exclusive	GSfam Exclusive	5.77e-01	4.41e-01	6.78e-01	5.88e-05
GSfam Exclusive	sigma352 Exclusive	2.25e-09	7.89e-01	2.99e-05	8.95e-01
sigma352 Exclusive	Overlap	6.58e-01	4.76e-01	6.58e-01	6.63e-02
GSfam Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.74e-06
Overlap	Exclusives	3.19e-02	6.76e-02	2.10e-27	4.12e-02



Evaluating how well sigma352 genes are linked to GSfam 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)
sigma352 Exclusive	GSfam	0.71	-0.92	-1.58	-0.78	4.21
GSfam Exclusive	sigma352	0.50	-0.71	-1.01	-0.64	-0.14
sigma352 Exclusive	GSfam Exclusive	0.70	-0.88	-1.51	-0.57	3.85
GSfam Exclusive	sigma352 Exclusive	0.49	-0.68	-0.77	-0.83	-0.29
sigma352 Exclusive	Overlap	0.81	-0.08	-1.06	-0.17	1.62
GSfam Exclusive	Overlap	1.00	2.39	3.25	2.49	3.11
Overlap	Exclusives	0.54	1.31	1.53	1.26	2.79

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)
sigma352 Exclusive	GSfam	0.01	-0.59	-1.17	-0.56	4.85
GSfam Exclusive	sigma352	0.02	0.56	0.22	0.40	0.35
sigma352 Exclusive	GSfam Exclusive	0.01	-0.56	-0.98	-0.41	6.10
GSfam Exclusive	sigma352 Exclusive	0.02	-0.86	-0.74	-0.80	-0.62
sigma352 Exclusive	Overlap	0.00	-0.34	-0.81	-0.39	-0.11
GSfam Exclusive	Overlap	0.07	185.54	72.34	217.48	190.84
Overlap	Exclusives	0.03	8.65	12.05	9.48	12.61

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	 
sigma352 Exclusive	349	348	45546
GSfam Exclusive	32	32	
Overlap	3	3