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)
sigma152 Exclusive	GSfam	1.41e-01	1.16e-01	2.97e-01	1.68e-02
GSfam Exclusive	sigma152	2.93e-04	9.83e-01	7.42e-03	9.93e-01
sigma152 Exclusive	GSfam Exclusive	9.77e-02	1.17e-01	3.09e-01	5.98e-02
GSfam Exclusive	sigma152 Exclusive	2.98e-04	9.62e-01	1.34e-02	9.93e-01
sigma152 Exclusive	Overlap	7.40e-01	6.76e-01	4.85e-01	2.09e-02
GSfam Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.74e-06
Overlap	Exclusives	4.73e-03	1.88e-03	8.84e-19	1.53e-05



Evaluating how well sigma152 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)
sigma152 Exclusive	GSfam	0.65	-1.06	-2.78	-0.82	3.21
GSfam Exclusive	sigma152	0.51	-0.54	-0.49	0.20	0.16
sigma152 Exclusive	GSfam Exclusive	0.64	-1.26	-3.13	-0.92	2.70
GSfam Exclusive	sigma152 Exclusive	0.50	-0.78	-0.64	-0.13	-0.23
sigma152 Exclusive	Overlap	0.82	0.23	0.48	0.45	1.95
GSfam Exclusive	Overlap	1.00	2.39	3.53	2.15	3.21
Overlap	Exclusives	0.60	2.87	3.25	2.73	4.52

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)
sigma152 Exclusive	GSfam	0.00	-0.71	-1.84	-0.50	2.74
GSfam Exclusive	sigma152	0.01	1.62	1.41	2.09	1.45
sigma152 Exclusive	GSfam Exclusive	0.00	-0.64	-2.39	-0.45	0.35
GSfam Exclusive	sigma152 Exclusive	0.01	-0.90	-0.97	-0.45	-0.82
sigma152 Exclusive	Overlap	0.00	-0.34	-0.02	-0.21	0.25
GSfam Exclusive	Overlap	0.07	168.78	76.83	230.83	131.01
Overlap	Exclusives	0.03	13.69	24.92	15.82	23.20

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	 
sigma152 Exclusive	149	148	45546
GSfam Exclusive	32	32	
Overlap	3	3