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)
CAND AD Exclusive	NIAGADS	1.54e-01	2.84e-01	8.28e-03	7.91e-01
NIAGADS Exclusive	CAND AD	5.41e-02	1.10e-01	2.51e-01	7.49e-03
CAND AD Exclusive	NIAGADS Exclusive	1.43e-01	2.29e-01	1.56e-02	7.47e-01
NIAGADS Exclusive	CAND AD Exclusive	4.61e-02	1.21e-01	3.89e-01	4.74e-03
CAND AD Exclusive	Overlap	6.53e-01	7.72e-01	4.75e-01	5.94e-01
NIAGADS Exclusive	Overlap	5.74e-01	6.14e-01	5.54e-01	4.55e-01
Overlap	Exclusives	5.88e-02	8.45e-01	8.56e-02	9.36e-01



Evaluating how well CAND AD genes are linked to NIAGADS 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)
CAND AD Exclusive	NIAGADS	0.49	-1.54	-2.00	-2.05	-0.49
NIAGADS Exclusive	CAND AD	0.42	-2.09	-1.99	-2.47	-2.35
CAND AD Exclusive	NIAGADS Exclusive	0.48	-1.89	-2.41	-1.76	-0.61
NIAGADS Exclusive	CAND AD Exclusive	0.43	-2.05	-2.14	-2.02	-2.82
CAND AD Exclusive	Overlap	0.66	0.73	0.65	0.94	0.72
NIAGADS Exclusive	Overlap	0.22	-0.76	-0.72	-0.87	-0.99
Overlap	Exclusives	0.50	0.50	-0.28	-0.07	0.10

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)
CAND AD Exclusive	NIAGADS	0.01	-1.59	-1.29	-1.29	-0.67
NIAGADS Exclusive	CAND AD	0.00	-1.83	-1.60	-1.63	-1.98
CAND AD Exclusive	NIAGADS Exclusive	0.01	-1.68	-1.86	-1.57	-0.99
NIAGADS Exclusive	CAND AD Exclusive	0.00	-1.59	-1.63	-0.69	-1.15
CAND AD Exclusive	Overlap	0.00	-0.15	-0.16	-0.15	-0.20
NIAGADS Exclusive	Overlap	0.00	-0.13	-0.15	-0.28	-0.39
Overlap	Exclusives	0.01	-0.09	0.08	-0.17	0.06

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	 
CAND AD Exclusive	100	100	
NIAGADS Exclusive	121	120	RFPL2
Overlap	1	1