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_58 Exclusive	GS_31	4.83e-01	2.55e-01	1.66e-01	7.53e-02
GS_31 Exclusive	APOE4_58	5.58e-02	3.69e-01	2.72e-01	4.22e-01
APOE4_58 Exclusive	GS_31 Exclusive	4.38e-01	2.94e-01	3.35e-01	2.03e-01
GS_31 Exclusive	APOE4_58 Exclusive	4.05e-02	6.98e-01	5.93e-01	5.27e-01
APOE4_58 Exclusive	Overlap	4.49e-01	5.17e-01	2.59e-01	9.75e-02
GS_31 Exclusive	Overlap	9.85e-05	9.85e-05	9.85e-05	9.85e-05
Overlap	Exclusives	4.30e-07	1.25e-06	2.49e-14	3.56e-07



Evaluating how well APOE4_58 genes are linked to GS_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_58 Exclusive	GS_31	0.61	0.35	0.72	0.39	2.12
GS_31 Exclusive	APOE4_58	0.54	-0.56	-0.58	-0.68	1.36
APOE4_58 Exclusive	GS_31 Exclusive	0.59	0.30	0.57	0.01	1.64
GS_31 Exclusive	APOE4_58 Exclusive	0.53	-0.78	-0.63	-0.98	0.64
APOE4_58 Exclusive	Overlap	0.88	1.56	1.16	1.56	1.84
GS_31 Exclusive	Overlap	1.00	2.38	2.09	2.35	2.77
Overlap	Exclusives	0.68	4.30	4.41	2.66	5.37

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_58 Exclusive	GS_31	0.00	0.08	0.74	0.36	0.80
GS_31 Exclusive	APOE4_58	0.01	7.85	5.05	4.49	1.60
APOE4_58 Exclusive	GS_31 Exclusive	0.00	0.13	0.88	-0.02	-0.01
GS_31 Exclusive	APOE4_58 Exclusive	0.00	0.49	0.17	0.48	0.67
APOE4_58 Exclusive	Overlap	0.00	0.26	-0.91	0.46	0.99
GS_31 Exclusive	Overlap	0.05	109.20	137.97	124.52	174.13
Overlap	Exclusives	0.05	51.90	73.46	35.12	78.02

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_58 Exclusive	56	56	
GS_31 Exclusive	29	28	MS4A
Overlap	2	2