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)
AD_UKB_z3 Exclusive	tier1_31	7.40e-05	2.62e-06	2.78e-05	2.26e-07
tier1_31 Exclusive	AD_UKB_z3	2.05e-01	3.04e-01	1.76e-01	8.57e-02
AD_UKB_z3 Exclusive	tier1_31 Exclusive	2.53e-04	4.92e-05	1.28e-04	2.04e-06
tier1_31 Exclusive	AD_UKB_z3 Exclusive	8.21e-01	4.20e-01	1.84e-01	1.30e-01
AD_UKB_z3 Exclusive	Overlap	1.73e-02	7.72e-04	5.29e-02	2.85e-03
tier1_31 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	1.74e-06
Overlap	Exclusives	4.11e-09	1.09e-08	6.86e-18	7.76e-09



Evaluating how well AD_UKB_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)
AD_UKB_z3 Exclusive	tier1_31	0.79	2.59	5.78	3.23	6.17
tier1_31 Exclusive	AD_UKB_z3	0.60	1.99	1.92	1.73	2.01
AD_UKB_z3 Exclusive	tier1_31 Exclusive	0.78	2.62	4.90	3.70	5.31
tier1_31 Exclusive	AD_UKB_z3 Exclusive	0.56	1.88	1.21	1.45	1.19
AD_UKB_z3 Exclusive	Overlap	0.95	2.29	3.74	2.03	2.88
tier1_31 Exclusive	Overlap	1.00	3.10	2.63	2.71	3.26
Overlap	Exclusives	0.74	4.37	7.62	3.34	5.97

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)
AD_UKB_z3 Exclusive	tier1_31	0.01	5.58	22.21	10.13	8.91
tier1_31 Exclusive	AD_UKB_z3	0.02	25.61	23.89	26.31	22.28
AD_UKB_z3 Exclusive	tier1_31 Exclusive	0.01	5.55	14.54	9.11	12.66
tier1_31 Exclusive	AD_UKB_z3 Exclusive	0.00	7.03	5.17	5.80	3.72
AD_UKB_z3 Exclusive	Overlap	0.00	10.49	35.60	6.99	2.81
tier1_31 Exclusive	Overlap	0.10	296.46	80.66	201.73	86.41
Overlap	Exclusives	0.12	126.06	239.75	40.25	214.47

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	 
AD_UKB_z3 Exclusive	38	38	
tier1_31 Exclusive	28	27	MS4A
Overlap	3	3