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_GeneEmbed_AD Exclusive	GS_tier2	5.77e-03	8.09e-02	7.65e-06	1.40e-04
GS_tier2 Exclusive	100_GeneEmbed_AD	9.16e-04	1.18e-05	9.54e-11	2.79e-18
100_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	1.27e-02	1.72e-01	9.61e-05	1.14e-03
GS_tier2 Exclusive	100_GeneEmbed_AD Exclusive	9.16e-04	1.18e-05	6.78e-11	1.58e-17
100_GeneEmbed_AD Exclusive	Overlap	1.48e-03	4.58e-02	9.85e-04	2.07e-02
GS_tier2 Exclusive	Overlap	8.90e-02	1.26e-01	8.90e-02	9.32e-02
Overlap	Exclusives	4.76e-13	7.23e-21	8.89e-26	5.80e-35



Evaluating how well 100_GeneEmbed_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_GeneEmbed_AD Exclusive	GS_tier2	0.70	2.99	2.96	2.65	4.62
GS_tier2 Exclusive	100_GeneEmbed_AD	0.79	1.99	5.98	2.22	10.98
100_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	0.69	2.59	2.40	2.81	3.86
GS_tier2 Exclusive	100_GeneEmbed_AD Exclusive	0.79	2.13	5.97	2.38	9.11
100_GeneEmbed_AD Exclusive	Overlap	0.93	2.90	1.98	1.81	2.18
GS_tier2 Exclusive	Overlap	0.90	2.16	1.69	1.82	1.83
Overlap	Exclusives	0.81	1.71	10.92	1.99	11.56

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_GeneEmbed_AD Exclusive	GS_tier2	0.01	-0.04	4.41	3.42	7.35
GS_tier2 Exclusive	100_GeneEmbed_AD	0.02	3.00	13.77	7.17	15.26
100_GeneEmbed_AD Exclusive	GS_tier2 Exclusive	0.01	-0.24	3.05	3.05	4.86
GS_tier2 Exclusive	100_GeneEmbed_AD Exclusive	0.02	2.91	12.66	7.06	24.60
100_GeneEmbed_AD Exclusive	Overlap	0.00	5.47	3.05	1.58	5.10
GS_tier2 Exclusive	Overlap	0.01	19.73	18.09	22.04	1.24
Overlap	Exclusives	0.03	2.69	22.21	2.75	17.17

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_GeneEmbed_AD Exclusive	98	97	SIGLEC5
GS_tier2 Exclusive	44	41	IGH;TNSF12;TNSF13
Overlap	2	2