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)
GeneGroup1 Exclusive	AD_GS	2.79e-01	2.77e-01	5.43e-01	4.13e-03
AD_GS Exclusive	GeneGroup1	2.08e-01	2.40e-01	1.42e-02	2.74e-01
GeneGroup1 Exclusive	AD_GS Exclusive	2.98e-01	3.51e-01	4.44e-01	7.01e-03
AD_GS Exclusive	GeneGroup1 Exclusive	2.04e-01	1.56e-01	8.89e-03	2.52e-01
GeneGroup1 Exclusive	Overlap	4.75e-01	1.98e-02	5.35e-01	7.92e-02
AD_GS Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	5.96e-05	2.97e-03	1.02e-67	5.43e-04



Evaluating how well GeneGroup1 genes are linked to AD_GS 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)
GeneGroup1 Exclusive	AD_GS	0.68	1.23	1.61	0.73	2.85
AD_GS Exclusive	GeneGroup1	0.52	1.14	0.73	0.81	0.82
GeneGroup1 Exclusive	AD_GS Exclusive	0.66	0.86	1.40	0.78	2.98
AD_GS Exclusive	GeneGroup1 Exclusive	0.51	1.23	0.90	0.82	0.68
GeneGroup1 Exclusive	Overlap	0.98	0.74	128922979459803.00	0.74	1.81
AD_GS Exclusive	Overlap	1.00	1.34	111424462830387.00	1.54	2.06
Overlap	Exclusives	0.58	inf	4.22	2.55	4.65

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)
GeneGroup1 Exclusive	AD_GS	0.00	0.40	0.70	0.13	0.83
AD_GS Exclusive	GeneGroup1	0.01	0.30	0.66	0.71	0.30
GeneGroup1 Exclusive	AD_GS Exclusive	0.00	0.10	0.45	-0.01	1.00
AD_GS Exclusive	GeneGroup1 Exclusive	0.01	0.17	0.58	0.12	0.21
GeneGroup1 Exclusive	Overlap	0.00	0.11	4051876407858447.00	0.08	3.53
AD_GS Exclusive	Overlap	0.02	30.25	32920936630948200.00	41.43	56.46
Overlap	Exclusives	0.02	1435356684968370.00	4.80	5.24	9.45

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	 
GeneGroup1 Exclusive	200	200	
AD_GS Exclusive	24	23	HLA -DRB1
Overlap	1	1