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)
APOE32_WES_R2 Exclusive	TIER1_GS	6.05e-01	3.55e-01	7.21e-01	1.43e-01
TIER1_GS Exclusive	APOE32_WES_R2	9.02e-02	9.17e-01	3.21e-01	3.76e-01
APOE32_WES_R2 Exclusive	TIER1_GS Exclusive	6.73e-01	3.54e-01	5.80e-01	3.28e-01
TIER1_GS Exclusive	APOE32_WES_R2 Exclusive	8.61e-02	9.33e-01	3.00e-01	4.98e-01
APOE32_WES_R2 Exclusive	Overlap	3.56e-01	1.58e-01	1.78e-01	2.57e-01
TIER1_GS Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	1.01e-05	6.27e-05	2.45e-05	3.68e-06



Evaluating how well APOE32_WES_R2 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)
APOE32_WES_R2 Exclusive	TIER1_GS	0.58	-0.06	-0.58	-0.29	1.34
TIER1_GS Exclusive	APOE32_WES_R2	0.53	-0.01	0.22	0.17	1.01
APOE32_WES_R2 Exclusive	TIER1_GS Exclusive	0.57	-0.23	-0.76	-0.43	1.24
TIER1_GS Exclusive	APOE32_WES_R2 Exclusive	0.52	-0.13	0.06	0.17	0.75
APOE32_WES_R2 Exclusive	Overlap	0.83	1.14	1.65	1.51	1.24
TIER1_GS Exclusive	Overlap	1.00	1.88	2.00	2.56	1.81
Overlap	Exclusives	0.61	1.83	3.62	2.22	4.59

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)
APOE32_WES_R2 Exclusive	TIER1_GS	0.00	-0.12	-0.01	0.01	0.93
TIER1_GS Exclusive	APOE32_WES_R2	0.01	1.06	1.32	0.56	1.32
APOE32_WES_R2 Exclusive	TIER1_GS Exclusive	0.00	-0.17	-0.21	-0.09	0.73
TIER1_GS Exclusive	APOE32_WES_R2 Exclusive	0.01	-0.19	0.24	0.07	0.23
APOE32_WES_R2 Exclusive	Overlap	0.00	0.08	0.92	0.44	0.24
TIER1_GS Exclusive	Overlap	0.06	51.32	99.93	325.69	103.25
Overlap	Exclusives	0.03	17.29	17.52	17.37	32.74

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	 
APOE32_WES_R2 Exclusive	126	126	
TIER1_GS Exclusive	30	29	MS4A
Overlap	1	1