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_z_3_127 Exclusive	adgs_25_genes	5.76e-01	4.11e-01	5.50e-01	2.02e-02
adgs_25_genes Exclusive	apoe4_z_3_127	2.79e-01	6.66e-01	2.05e-01	4.73e-01
apoe4_z_3_127 Exclusive	adgs_25_genes Exclusive	8.72e-01	5.42e-01	9.64e-01	4.76e-02
adgs_25_genes Exclusive	apoe4_z_3_127 Exclusive	2.85e-01	7.50e-01	1.88e-01	6.49e-01
apoe4_z_3_127 Exclusive	Overlap	6.27e-01	6.61e-01	7.08e-01	9.75e-02
adgs_25_genes Exclusive	Overlap	9.85e-05	9.85e-05	9.85e-05	9.85e-05
Overlap	Exclusives	1.78e-02	8.17e-03	3.43e-12	1.84e-03



Evaluating how well apoe4_z_3_127 genes are linked to adgs_25_genes 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_z_3_127 Exclusive	adgs_25_genes	0.65	0.51	1.18	0.34	2.53
adgs_25_genes Exclusive	apoe4_z_3_127	0.52	0.39	0.01	0.22	0.53
apoe4_z_3_127 Exclusive	adgs_25_genes Exclusive	0.63	0.30	0.87	0.06	2.07
adgs_25_genes Exclusive	apoe4_z_3_127 Exclusive	0.51	0.21	-0.05	0.14	0.33
apoe4_z_3_127 Exclusive	Overlap	0.85	1.03	0.79	1.06	2.02
adgs_25_genes Exclusive	Overlap	1.00	2.19	1.71	2.12	2.48
Overlap	Exclusives	0.57	2.98	2.46	1.97	3.15

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_z_3_127 Exclusive	adgs_25_genes	0.00	0.08	1.38	0.03	0.04
adgs_25_genes Exclusive	apoe4_z_3_127	0.01	2.92	2.52	1.86	0.65
apoe4_z_3_127 Exclusive	adgs_25_genes Exclusive	0.00	-0.04	0.83	-0.19	0.37
adgs_25_genes Exclusive	apoe4_z_3_127 Exclusive	0.01	0.32	0.18	0.06	-0.06
apoe4_z_3_127 Exclusive	Overlap	0.00	0.92	0.61	0.74	4.96
adgs_25_genes Exclusive	Overlap	0.05	145.91	190.06	110.92	177.94
Overlap	Exclusives	0.02	20.90	12.22	18.62	13.70

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_z_3_127 Exclusive	125	125	
adgs_25_genes Exclusive	23	23	
Overlap	2	2