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)
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31	1.33e-08	5.75e-08	1.71e-08	3.26e-09
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116	2.39e-01	1.03e-01	7.29e-03	1.53e-01
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31 Exclusive	3.78e-07	3.27e-07	2.56e-07	1.38e-07
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	1.14e-01	6.98e-02	3.86e-03	1.87e-01
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	Overlap	8.41e-03	5.03e-02	1.02e-02	4.67e-03
tier1_31 Exclusive	Overlap	9.14e-09	2.74e-08	1.83e-09	9.14e-09
Overlap	Exclusives	2.10e-04	1.08e-04	1.89e-14	2.09e-04



Evaluating how well ADC cases and excluding AMISH  and APOE4 controls_116 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)
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31	0.84	3.47	5.98	5.21	6.56
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116	0.53	1.10	1.17	1.34	1.02
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31 Exclusive	0.82	3.64	5.79	3.63	5.48
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	0.52	0.83	1.04	0.99	0.46
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	Overlap	0.94	2.92	2.84	2.69	3.31
tier1_31 Exclusive	Overlap	1.00	3.47	3.03	3.05	3.28
Overlap	Exclusives	0.63	4.09	6.51	3.39	5.36

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)
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31	0.01	10.15	18.91	16.14	3.15
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116	0.02	24.53	26.25	24.77	30.42
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	tier1_31 Exclusive	0.01	11.66	14.30	6.89	12.46
tier1_31 Exclusive	ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	0.02	8.75	17.92	17.14	17.09
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	Overlap	0.01	25.00	20.70	11.31	17.66
tier1_31 Exclusive	Overlap	0.08	156.48	142.17	261.07	211.98
Overlap	Exclusives	0.07	85.09	103.84	60.86	94.12

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	 
ADC cases and excluding AMISH  and APOE4 controls_116 Exclusive	112	110	CHURC1-FNTB;EDDM13
tier1_31 Exclusive	27	26	MS4A
Overlap	4	4