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)
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS	1.21e-09	2.76e-08	5.94e-09	5.81e-10
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2	2.55e-02	2.35e-02	1.24e-04	2.98e-02
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS Exclusive	3.23e-06	1.42e-06	1.55e-05	6.07e-07
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2 Exclusive	8.86e-02	9.49e-02	1.58e-04	1.25e-01
mu-AD_EUR_20K-WES_clean2 Exclusive	Overlap	8.67e-08	8.31e-04	2.51e-07	1.52e-07
25-GS Exclusive	Overlap	7.45e-12	7.45e-12	4.47e-11	1.57e-10
Overlap	Exclusives	7.78e-04	2.66e-04	9.57e-14	5.03e-04



Evaluating how well mu-AD_EUR_20K-WES_clean2 genes are linked to 25-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)
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS	0.87	4.32	6.50	3.28	6.45
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2	0.56	3.19	2.72	2.77	2.33
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS Exclusive	0.84	4.55	5.96	3.75	4.85
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2 Exclusive	0.55	3.23	2.52	2.67	2.08
mu-AD_EUR_20K-WES_clean2 Exclusive	Overlap	0.99	4.25	3.12	3.22	4.60
25-GS Exclusive	Overlap	1.00	3.77	3.43	2.89	4.06
Overlap	Exclusives	0.59	2.38	5.90	2.42	3.73

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)
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS	0.03	65.12	83.56	26.33	46.99
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2	0.03	17.93	28.72	23.26	18.06
mu-AD_EUR_20K-WES_clean2 Exclusive	25-GS Exclusive	0.02	44.58	69.87	33.68	48.32
25-GS Exclusive	mu-AD_EUR_20K-WES_clean2 Exclusive	0.02	14.93	18.38	12.82	13.27
mu-AD_EUR_20K-WES_clean2 Exclusive	Overlap	0.02	54.07	48.26	39.26	65.27
25-GS Exclusive	Overlap	0.08	304.10	238.24	76.49	3.84
Overlap	Exclusives	0.06	57.90	127.34	41.16	76.65

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	 
mu-AD_EUR_20K-WES_clean2 Exclusive	138	134	;PRAMEF11;RFPL2;AL162417.1
25-GS Exclusive	20	19	HLA -DRB1
Overlap	5	5