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)
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31	1.89e-01	2.37e-01	7.03e-01	1.83e-01
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106	1.57e-01	9.44e-01	2.73e-01	9.34e-02
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31 Exclusive	1.57e-01	2.54e-01	7.85e-01	1.57e-01
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	8.08e-02	6.06e-01	4.63e-01	1.09e-01
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	1.00e+00	8.75e-01	9.89e-01	8.57e-01
tier1_31 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.52e-05
Overlap	Exclusives	1.37e-03	7.88e-04	1.97e-08	3.90e-04



Evaluating how well NIGADS_WGS_R4_APOE4_106 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)
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31	0.55	-0.89	-0.97	-0.44	1.06
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106	0.55	0.52	0.34	0.55	1.77
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31 Exclusive	0.55	-0.98	-1.00	-0.43	1.05
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	0.53	-0.06	-0.12	0.01	1.22
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	0.59	-0.09	-0.64	-0.40	0.67
tier1_31 Exclusive	Overlap	1.00	2.98	2.81	2.74	3.59
Overlap	Exclusives	0.63	4.19	4.54	3.19	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)
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31	0.00	-0.72	-1.05	-0.49	-0.11
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106	0.01	2.25	1.83	0.99	2.00
NIGADS_WGS_R4_APOE4_106 Exclusive	tier1_31 Exclusive	0.00	-0.88	-1.16	-0.47	-0.13
tier1_31 Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	0.01	-0.67	-0.78	-0.55	0.06
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	0.00	-0.32	-0.13	-0.35	0.17
tier1_31 Exclusive	Overlap	0.04	100.01	182.55	75.53	17.38
Overlap	Exclusives	0.03	11.71	32.65	23.72	25.53

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	 
NIGADS_WGS_R4_APOE4_106 Exclusive	103	102	CHURC1-FNTB
tier1_31 Exclusive	28	27	MS4A
Overlap	3	3