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)
100_cont_genemebed_AD Exclusive	GS_tier2	1.97e-02	1.51e-03	2.62e-07	3.03e-06
GS_tier2 Exclusive	100_cont_genemebed_AD	1.47e-03	2.58e-08	5.27e-12	1.02e-16
100_cont_genemebed_AD Exclusive	GS_tier2 Exclusive	9.89e-02	5.89e-03	2.20e-06	4.64e-05
GS_tier2 Exclusive	100_cont_genemebed_AD Exclusive	1.49e-03	5.10e-07	1.96e-12	1.95e-15
100_cont_genemebed_AD Exclusive	Overlap	3.66e-05	7.19e-05	1.74e-06	5.79e-04
GS_tier2 Exclusive	Overlap	1.36e-01	3.68e-03	6.22e-02	2.82e-02
Overlap	Exclusives	5.48e-16	2.87e-14	2.61e-44	2.32e-33



Evaluating how well 100_cont_genemebed_AD genes are linked to GS_tier2 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)
100_cont_genemebed_AD Exclusive	GS_tier2	0.72	4.12	3.37	3.27	5.44
GS_tier2 Exclusive	100_cont_genemebed_AD	0.79	2.10	7.25	2.22	10.67
100_cont_genemebed_AD Exclusive	GS_tier2 Exclusive	0.70	3.55	3.02	3.11	4.59
GS_tier2 Exclusive	100_cont_genemebed_AD Exclusive	0.79	1.90	5.99	2.33	9.13
100_cont_genemebed_AD Exclusive	Overlap	0.97	3.23	3.01	2.15	2.75
GS_tier2 Exclusive	Overlap	0.93	2.13	2.77	2.42	2.75
Overlap	Exclusives	0.81	3.35	9.92	2.01	12.78

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)
100_cont_genemebed_AD Exclusive	GS_tier2	0.01	0.24	4.88	3.64	5.69
GS_tier2 Exclusive	100_cont_genemebed_AD	0.02	2.33	13.99	3.94	20.87
100_cont_genemebed_AD Exclusive	GS_tier2 Exclusive	0.00	0.29	2.78	3.12	2.63
GS_tier2 Exclusive	100_cont_genemebed_AD Exclusive	0.02	1.99	8.54	3.84	15.48
100_cont_genemebed_AD Exclusive	Overlap	0.00	1.31	14.50	0.54	8.39
GS_tier2 Exclusive	Overlap	0.00	4.56	3.84	8.22	4.42
Overlap	Exclusives	0.03	5.61	21.77	3.17	17.80

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	 
100_cont_genemebed_AD Exclusive	97	97	
GS_tier2 Exclusive	43	40	IGH;TNSF12;TNSF13
Overlap	3	3