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)
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31	4.91e-07	2.72e-08	1.43e-07	5.47e-09
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35	8.24e-02	1.17e-01	4.90e-02	2.00e-02
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31 Exclusive	1.08e-05	3.35e-07	6.21e-06	5.55e-07
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	2.51e-01	1.30e-01	8.03e-02	7.23e-02
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	Overlap	1.33e-02	8.41e-03	7.17e-03	4.21e-04
tier1_31 Exclusive	Overlap	1.83e-09	1.83e-09	1.83e-09	1.83e-09
Overlap	Exclusives	1.79e-05	1.33e-06	2.53e-21	2.39e-08



Evaluating how well Sigma_EA_AD_APOE4_HC_APOE3_agefilter_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)
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31	0.81	4.13	6.40	3.78	5.82
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35	0.57	2.52	2.81	2.31	2.56
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31 Exclusive	0.79	3.85	6.01	2.72	5.16
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	0.55	2.25	2.04	1.86	1.77
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	Overlap	0.97	2.42	3.12	2.94	3.17
tier1_31 Exclusive	Overlap	1.00	2.58	3.19	2.75	3.13
Overlap	Exclusives	0.65	5.00	6.00	4.01	7.43

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)
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31	0.01	17.73	18.86	15.76	2.52
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35	0.02	27.48	28.98	16.08	24.36
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	tier1_31 Exclusive	0.01	14.27	17.08	5.52	6.09
tier1_31 Exclusive	Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	0.02	13.37	19.44	13.46	13.73
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	Overlap	0.01	15.91	68.31	19.10	28.73
tier1_31 Exclusive	Overlap	0.10	114.23	169.45	231.18	302.70
Overlap	Exclusives	0.08	95.78	107.41	46.66	125.97

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	 
Sigma_EA_AD_APOE4_HC_APOE3_agefilter_z35 Exclusive	119	115	RFPL2;AC099811.2;IQCJ-SCHIP1;Gene_name
tier1_31 Exclusive	27	26	MS4A
Overlap	4	4