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_GS Exclusive	AD_GWAS	1.17e-10	3.52e-10	3.95e-12	6.43e-12
AD_GWAS Exclusive	AD_GS	1.34e-08	3.87e-09	2.63e-09	3.03e-09
AD_GS Exclusive	AD_GWAS Exclusive	1.93e-10	6.43e-10	4.31e-12	1.40e-11
AD_GWAS Exclusive	AD_GS Exclusive	4.33e-08	1.11e-08	7.80e-09	1.38e-08
AD_GS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
AD_GWAS Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	4.96e-16	2.14e-17	2.42e-20	3.25e-19



Evaluating how well AD_GS genes are linked to AD_GWAS 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_GS Exclusive	AD_GWAS	0.92	4.98	7.37	3.99	6.67
AD_GWAS Exclusive	AD_GS	0.97	4.76	6.52	3.46	5.67
AD_GS Exclusive	AD_GWAS Exclusive	0.91	4.97	8.04	4.45	7.73
AD_GWAS Exclusive	AD_GS Exclusive	0.96	5.41	7.19	3.92	6.30
AD_GS Exclusive	Overlap	1.00	2.55	1.59	1.96	1.73
AD_GWAS Exclusive	Overlap	1.00	1.12	1.88	1.68	1.67
Overlap	Exclusives	0.92	2.12	8.14	2.46	9.33

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_GS Exclusive	AD_GWAS	0.03	19.61	54.91	39.68	40.15
AD_GWAS Exclusive	AD_GS	0.04	81.05	19.35	57.44	5.58
AD_GS Exclusive	AD_GWAS Exclusive	0.02	13.70	57.46	11.53	62.32
AD_GWAS Exclusive	AD_GS Exclusive	0.04	73.76	39.05	16.21	42.57
AD_GS Exclusive	Overlap	0.02	26.10	128.17	80.85	10.55
AD_GWAS Exclusive	Overlap	0.01	4.51	5.63	27.78	11.76
Overlap	Exclusives	0.02	11.73	32.33	2.95	47.43

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_GS Exclusive	13	13	
AD_GWAS Exclusive	24	23	HLA -DRB1
Overlap	1	1