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)
APOE4 Age filtered_z35 Exclusive	tier1_31	3.12e-01	4.36e-01	9.40e-02	1.93e-02
tier1_31 Exclusive	APOE4 Age filtered_z35	1.29e-01	3.16e-01	9.20e-02	2.37e-01
APOE4 Age filtered_z35 Exclusive	tier1_31 Exclusive	3.50e-01	5.32e-01	2.00e-01	7.39e-02
tier1_31 Exclusive	APOE4 Age filtered_z35 Exclusive	2.01e-01	5.41e-01	2.23e-01	2.86e-01
APOE4 Age filtered_z35 Exclusive	Overlap	4.43e-03	5.17e-01	2.76e-03	2.96e-04
tier1_31 Exclusive	Overlap	9.85e-05	9.85e-05	9.85e-05	9.85e-05
Overlap	Exclusives	3.05e-07	2.96e-07	9.53e-19	4.51e-09



Evaluating how well APOE4 Age filtered_z35 genes are linked to tier1_31 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)
APOE4 Age filtered_z35 Exclusive	tier1_31	0.67	1.57	1.62	1.38	2.85
tier1_31 Exclusive	APOE4 Age filtered_z35	0.57	0.64	1.29	1.04	2.21
APOE4 Age filtered_z35 Exclusive	tier1_31 Exclusive	0.65	1.28	1.45	0.85	2.84
tier1_31 Exclusive	APOE4 Age filtered_z35 Exclusive	0.56	0.37	1.09	0.65	2.13
APOE4 Age filtered_z35 Exclusive	Overlap	0.99	2.37	1.87	2.22	2.28
tier1_31 Exclusive	Overlap	1.00	2.16	1.99	2.37	2.48
Overlap	Exclusives	0.66	4.39	5.44	3.35	6.76

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)
APOE4 Age filtered_z35 Exclusive	tier1_31	0.00	3.98	3.30	3.11	2.55
tier1_31 Exclusive	APOE4 Age filtered_z35	0.01	5.54	5.61	1.95	2.24
APOE4 Age filtered_z35 Exclusive	tier1_31 Exclusive	0.00	1.44	2.19	0.80	0.19
tier1_31 Exclusive	APOE4 Age filtered_z35 Exclusive	0.01	1.58	2.01	2.01	2.72
APOE4 Age filtered_z35 Exclusive	Overlap	0.01	8.39	12.86	5.80	33.29
tier1_31 Exclusive	Overlap	0.05	89.14	299.63	151.47	126.56
Overlap	Exclusives	0.05	30.44	66.27	40.42	63.32

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	 
APOE4 Age filtered_z35 Exclusive	85	85	
tier1_31 Exclusive	29	28	MS4A
Overlap	2	2