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	tier2_gs	3.18e-01	1.92e-01	4.79e-02	2.06e-03
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106	8.67e-01	7.49e-01	1.03e-02	1.06e-01
NIGADS_WGS_R4_APOE4_106 Exclusive	tier2_gs Exclusive	3.40e-01	1.26e-01	3.33e-02	1.49e-03
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	8.12e-01	8.06e-01	2.15e-02	8.10e-02
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	9.90e-02	1.78e-01	2.77e-01	3.37e-01
tier2_gs Exclusive	Overlap	2.18e-01	3.37e-01	4.16e-01	3.96e-01
Overlap	Exclusives	2.23e-03	8.44e-01	8.79e-03	2.42e-02



Evaluating how well NIGADS_WGS_R4_APOE4_106 genes are linked to tier2_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)
NIGADS_WGS_R4_APOE4_106 Exclusive	tier2_gs	0.63	0.62	1.03	0.80	3.46
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106	0.55	0.95	0.33	0.58	1.96
NIGADS_WGS_R4_APOE4_106 Exclusive	tier2_gs Exclusive	0.64	0.71	1.50	1.15	3.30
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	0.55	0.51	0.01	0.37	1.76
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	0.15	-1.27	-0.95	-1.19	-1.20
tier2_gs Exclusive	Overlap	0.72	1.77	1.12	0.91	1.11
Overlap	Exclusives	0.56	0.50	0.24	0.29	2.73

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	tier2_gs	0.00	-0.04	0.89	0.66	1.72
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106	0.02	19.50	13.56	17.78	15.05
NIGADS_WGS_R4_APOE4_106 Exclusive	tier2_gs Exclusive	0.00	-0.18	1.06	0.83	2.82
tier2_gs Exclusive	NIGADS_WGS_R4_APOE4_106 Exclusive	0.02	14.16	14.74	15.48	17.34
NIGADS_WGS_R4_APOE4_106 Exclusive	Overlap	0.00	-0.16	-0.13	-0.40	-0.49
tier2_gs Exclusive	Overlap	0.00	0.10	-0.14	-0.22	-0.05
Overlap	Exclusives	0.01	-0.20	-0.75	-0.34	0.94

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	 
NIGADS_WGS_R4_APOE4_106 Exclusive	105	104	CHURC1-FNTB
tier2_gs Exclusive	45	42	TNSF13;TNSF12;IGH
Overlap	1	1