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)
100_GeneEmbed_AD Exclusive	GWAS_GS	1.23e-02	1.76e-01	7.19e-09	4.25e-04
GWAS_GS Exclusive	100_GeneEmbed_AD	4.33e-03	4.12e-03	8.94e-07	7.99e-16
100_GeneEmbed_AD Exclusive	GWAS_GS Exclusive	4.81e-02	3.26e-01	1.91e-07	8.35e-04
GWAS_GS Exclusive	100_GeneEmbed_AD Exclusive	7.09e-03	4.76e-03	2.65e-06	4.86e-15
100_GeneEmbed_AD Exclusive	Overlap	4.36e-07	1.59e-04	4.36e-07	7.19e-05
GWAS_GS Exclusive	Overlap	7.71e-02	7.71e-02	7.26e-02	2.28e-02
Overlap	Exclusives	1.01e-17	3.77e-21	1.33e-49	1.24e-39



Evaluating how well 100_GeneEmbed_AD genes are linked to GWAS_GS 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)
100_GeneEmbed_AD Exclusive	GWAS_GS	0.63	2.02	1.93	2.09	4.71
GWAS_GS Exclusive	100_GeneEmbed_AD	0.77	1.27	3.75	1.91	9.80
100_GeneEmbed_AD Exclusive	GWAS_GS Exclusive	0.62	1.52	1.67	1.89	3.89
GWAS_GS Exclusive	100_GeneEmbed_AD Exclusive	0.76	1.26	4.59	1.87	8.43
100_GeneEmbed_AD Exclusive	Overlap	0.98	2.42	2.33	2.57	2.67
GWAS_GS Exclusive	Overlap	0.93	2.00	2.04	2.09	2.43
Overlap	Exclusives	0.78	2.89	9.87	2.22	13.74

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)
100_GeneEmbed_AD Exclusive	GWAS_GS	0.01	2.40	3.43	3.15	3.31
GWAS_GS Exclusive	100_GeneEmbed_AD	0.02	1.55	8.45	5.49	12.69
100_GeneEmbed_AD Exclusive	GWAS_GS Exclusive	0.01	1.49	2.45	2.33	4.99
GWAS_GS Exclusive	100_GeneEmbed_AD Exclusive	0.02	1.02	6.47	3.63	9.00
100_GeneEmbed_AD Exclusive	Overlap	0.00	3.36	6.55	8.96	18.46
GWAS_GS Exclusive	Overlap	0.05	61.89	141.30	137.72	17.75
Overlap	Exclusives	0.06	14.75	43.85	10.69	78.35

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	 
100_GeneEmbed_AD Exclusive	97	96	SIGLEC5
GWAS_GS Exclusive	106	101	PCDH11Y;LINC00158;MIR302F;D21S2088E;SLC8A1-AS1
Overlap	3	3