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)
AD EA AF_0001 Exclusive	GeneGroup2	2.52e-01	6.16e-01	9.56e-01	1.96e-01
GeneGroup2 Exclusive	AD EA AF_0001	1.66e-02	7.88e-01	3.34e-01	5.20e-01
AD EA AF_0001 Exclusive	GeneGroup2 Exclusive	3.22e-01	6.55e-01	4.96e-01	9.72e-02
GeneGroup2 Exclusive	AD EA AF_0001 Exclusive	7.68e-03	5.08e-01	3.68e-01	6.17e-01
AD EA AF_0001 Exclusive	Overlap	1.60e-01	1.75e-01	3.04e-01	3.57e-01
GeneGroup2 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	6.66e-03	6.95e-03	3.73e-03	2.00e-03



Evaluating how well AD EA AF_0001 genes are linked to GeneGroup2 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)
AD EA AF_0001 Exclusive	GeneGroup2	0.56	-1.18	-1.20	-0.74	1.15
GeneGroup2 Exclusive	AD EA AF_0001	0.53	-1.12	-0.26	-0.25	0.90
AD EA AF_0001 Exclusive	GeneGroup2 Exclusive	0.59	-0.95	-0.64	-0.39	1.38
GeneGroup2 Exclusive	AD EA AF_0001 Exclusive	0.51	-1.54	-1.10	-1.09	0.34
AD EA AF_0001 Exclusive	Overlap	0.35	-1.38	-1.78	-1.31	-0.97
GeneGroup2 Exclusive	Overlap	1.00	2.90	3.24	2.95	3.31
Overlap	Exclusives	0.62	1.86	3.29	2.11	3.73

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)
AD EA AF_0001 Exclusive	GeneGroup2	0.00	-0.45	-1.24	-0.64	-0.05
GeneGroup2 Exclusive	AD EA AF_0001	0.01	9.13	3.52	4.97	12.69
AD EA AF_0001 Exclusive	GeneGroup2 Exclusive	0.00	-0.62	-0.85	-0.45	-0.19
GeneGroup2 Exclusive	AD EA AF_0001 Exclusive	0.00	-0.80	-0.38	-0.66	0.25
AD EA AF_0001 Exclusive	Overlap	0.00	-0.25	-0.30	-0.34	-0.29
GeneGroup2 Exclusive	Overlap	0.19	775.41	846.99	561.04	303.68
Overlap	Exclusives	0.04	41.06	21.05	42.86	65.34

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	 
AD EA AF_0001 Exclusive	71	70	TMEM269
GeneGroup2 Exclusive	22	22	
Overlap	3	3