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_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS	7.66e-01	6.54e-01	9.04e-01	2.63e-01
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74	3.30e-01	9.06e-01	8.43e-01	5.71e-01
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS Exclusive	6.70e-01	6.51e-01	8.99e-01	1.34e-01
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	3.12e-01	7.60e-01	9.34e-01	8.22e-01
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	Overlap	7.33e-01	8.51e-01	8.51e-01	8.71e-01
TIER1_GS Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	1.42e-05	5.28e-05	3.65e-06	4.88e-06



Evaluating how well Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 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_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS	0.57	-0.60	-0.61	-0.33	1.28
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74	0.52	-0.37	-0.25	0.08	0.77
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS Exclusive	0.57	-0.48	-0.37	-0.27	1.64
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	0.51	-0.50	-0.46	-0.33	0.27
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	Overlap	0.39	-0.56	-0.57	-0.61	-0.31
TIER1_GS Exclusive	Overlap	1.00	1.88	1.64	2.09	1.51
Overlap	Exclusives	0.62	2.73	3.38	2.18	4.67

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_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS	0.00	-0.78	-1.00	-0.44	0.02
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74	0.00	1.47	1.07	1.25	1.60
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	TIER1_GS Exclusive	0.00	-0.66	-0.78	-0.32	-0.08
TIER1_GS Exclusive	Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	0.00	-0.31	-0.83	-0.57	-0.29
Sigma_EA_APOE3_excluding_WCAP_agefiltered_74 Exclusive	Overlap	0.00	-0.35	-0.24	-0.38	-0.36
TIER1_GS Exclusive	Overlap	0.06	37.24	59.41	63.19	37.74
Overlap	Exclusives	0.03	14.38	36.55	20.78	21.94

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_APOE3_excluding_WCAP_agefiltered_74 Exclusive	72	72	
TIER1_GS Exclusive	30	29	MS4A
Overlap	1	1