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_HC_APOE3_agefilter_z3 Exclusive	tier1_31	1.88e-07	2.25e-09	1.63e-09	4.93e-11
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3	1.12e-01	2.19e-01	4.14e-02	3.64e-02
APOE4_HC_APOE3_agefilter_z3 Exclusive	tier1_31 Exclusive	1.44e-06	3.88e-07	2.32e-07	1.13e-08
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3 Exclusive	3.09e-01	2.87e-01	1.13e-01	8.35e-02
APOE4_HC_APOE3_agefilter_z3 Exclusive	Overlap	9.58e-05	1.83e-09	1.34e-05	9.05e-07
tier1_31 Exclusive	Overlap	1.83e-09	1.83e-09	1.83e-09	9.14e-09
Overlap	Exclusives	5.92e-05	1.33e-04	2.82e-26	1.41e-05



Evaluating how well APOE4_HC_APOE3_agefilter_z3 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_HC_APOE3_agefilter_z3 Exclusive	tier1_31	0.86	4.78	8.02	4.31	7.55
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3	0.55	3.03	2.30	2.37	2.46
APOE4_HC_APOE3_agefilter_z3 Exclusive	tier1_31 Exclusive	0.83	4.44	5.90	3.91	5.36
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3 Exclusive	0.54	2.89	1.69	2.16	2.44
APOE4_HC_APOE3_agefilter_z3 Exclusive	Overlap	0.99	2.52	3.74	2.46	3.37
tier1_31 Exclusive	Overlap	1.00	2.94	3.25	3.34	3.15
Overlap	Exclusives	0.60	7.48	5.41	3.88	4.85

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_HC_APOE3_agefilter_z3 Exclusive	tier1_31	0.02	17.68	34.77	23.71	37.38
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3	0.03	20.49	21.59	14.84	23.81
APOE4_HC_APOE3_agefilter_z3 Exclusive	tier1_31 Exclusive	0.01	11.51	15.04	10.56	11.83
tier1_31 Exclusive	APOE4_HC_APOE3_agefilter_z3 Exclusive	0.02	12.72	13.53	9.47	15.77
APOE4_HC_APOE3_agefilter_z3 Exclusive	Overlap	0.02	14.09	82.99	23.91	35.88
tier1_31 Exclusive	Overlap	0.10	212.78	157.94	400.47	115.30
Overlap	Exclusives	0.07	109.48	71.26	63.84	78.91

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_HC_APOE3_agefilter_z3 Exclusive	211	208	AC099811.2;RFPL2;IQCJ-SCHIP1
tier1_31 Exclusive	27	26	MS4A
Overlap	4	4