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_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS	3.92e-01	4.77e-01	1.66e-01	4.75e-02
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced	3.54e-01	6.57e-01	3.03e-01	1.19e-01
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS Exclusive	5.23e-01	3.74e-01	1.69e-01	8.06e-02
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	2.47e-01	7.89e-01	4.03e-01	1.36e-01
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	Overlap	7.52e-01	5.37e-01	6.61e-01	6.10e-01
TIER1_GS Exclusive	Overlap	9.85e-05	9.85e-05	9.85e-05	9.85e-05
Overlap	Exclusives	9.85e-04	1.33e-03	1.49e-27	4.48e-05



Evaluating how well Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced 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_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS	0.63	0.60	0.99	0.68	2.64
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced	0.55	1.12	0.83	0.80	2.02
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS Exclusive	0.62	0.52	1.21	0.82	2.15
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	0.54	0.84	0.63	0.64	1.48
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	Overlap	0.73	0.12	-0.15	0.10	0.94
TIER1_GS Exclusive	Overlap	1.00	2.71	2.30	2.65	2.39
Overlap	Exclusives	0.62	4.06	3.97	2.74	4.81

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_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS	0.00	0.87	1.48	0.78	1.11
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced	0.01	4.76	2.80	3.29	2.52
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	TIER1_GS Exclusive	0.00	0.45	1.66	0.61	0.11
TIER1_GS Exclusive	Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	0.01	1.15	0.76	1.05	1.20
Sigma_EA_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	Overlap	0.00	1.08	0.18	0.79	0.69
TIER1_GS Exclusive	Overlap	0.07	159.67	224.51	144.23	85.82
Overlap	Exclusives	0.06	99.63	83.65	33.23	67.92

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_APOE34_AD_balanced_APOE33_HC_balanced Exclusive	118	116	RFPL2;MUC2
TIER1_GS Exclusive	29	28	MS4A
Overlap	2	2