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)
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS	2.40e-11	5.06e-10	3.25e-11	2.63e-11
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015	1.48e-01	2.09e-01	9.88e-02	2.39e-01
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS Exclusive	1.11e-09	7.56e-09	4.61e-09	4.87e-09
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	3.50e-01	5.35e-01	3.46e-01	4.62e-01
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	Overlap	2.44e-05	8.71e-06	1.59e-04	1.52e-05
TIER1_GS Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	4.76e-06	4.90e-06	7.84e-14	5.43e-06



Evaluating how well Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 genes are linked to TIER1_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)
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS	0.87	5.41	8.38	3.99	7.27
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015	0.56	1.74	1.78	1.99	2.17
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS Exclusive	0.86	5.83	7.61	4.21	5.86
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	0.54	1.83	1.52	1.43	1.72
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	Overlap	0.99	3.30	2.72	2.31	3.27
TIER1_GS Exclusive	Overlap	1.00	2.47	2.42	2.87	3.31
Overlap	Exclusives	0.63	3.09	5.29	2.78	4.82

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)
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS	0.03	54.64	68.11	31.44	59.94
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015	0.04	44.11	56.83	56.91	60.18
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	TIER1_GS Exclusive	0.02	66.27	60.88	29.07	35.12
TIER1_GS Exclusive	Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	0.03	31.97	44.38	31.64	36.16
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	Overlap	0.01	32.86	26.86	14.65	7.45
TIER1_GS Exclusive	Overlap	0.10	188.82	120.12	319.20	256.53
Overlap	Exclusives	0.10	102.48	186.79	94.10	147.84

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	 
Sigma_EA_AD_APOE34_HC_APOE3_agefiltered_excluding_WCAP_fdr_015 Exclusive	99	95	AC099811.2;IQCJ-SCHIP1;AC093155.3;RFPL2
TIER1_GS Exclusive	28	27	MS4A
Overlap	3	3