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-diff-AD Exclusive	GS-AD	1.11e-06	8.95e-07	1.05e-07	8.71e-08
GS-AD Exclusive	Mu-diff-AD	1.58e-01	5.52e-01	2.54e-02	3.73e-02
Mu-diff-AD Exclusive	GS-AD Exclusive	1.33e-04	7.10e-05	1.75e-05	9.29e-06
GS-AD Exclusive	Mu-diff-AD Exclusive	5.34e-01	8.87e-01	1.20e-01	1.19e-01
Mu-diff-AD Exclusive	Overlap	1.31e-06	1.02e-02	6.04e-07	6.04e-07
GS-AD Exclusive	Overlap	1.83e-09	1.83e-09	1.83e-09	2.74e-08
Overlap	Exclusives	3.74e-04	2.65e-03	3.87e-18	2.66e-05



Evaluating how well Mu-diff-AD genes are linked to GS-AD 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-diff-AD Exclusive	GS-AD	0.82	3.20	5.62	3.03	5.75
GS-AD Exclusive	Mu-diff-AD	0.57	1.69	1.32	1.72	2.65
Mu-diff-AD Exclusive	GS-AD Exclusive	0.79	2.92	4.25	2.65	4.66
GS-AD Exclusive	Mu-diff-AD Exclusive	0.55	1.45	0.90	1.10	2.13
Mu-diff-AD Exclusive	Overlap	0.99	2.58	3.13	2.34	3.49
GS-AD Exclusive	Overlap	1.00	2.66	3.07	3.04	3.32
Overlap	Exclusives	0.63	2.81	4.34	2.92	5.49

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-diff-AD Exclusive	GS-AD	0.01	17.06	23.44	16.04	14.87
GS-AD Exclusive	Mu-diff-AD	0.02	8.71	13.62	8.51	8.44
Mu-diff-AD Exclusive	GS-AD Exclusive	0.01	10.40	19.57	12.25	0.86
GS-AD Exclusive	Mu-diff-AD Exclusive	0.01	5.35	5.37	3.31	6.65
Mu-diff-AD Exclusive	Overlap	0.01	20.15	20.80	21.68	47.30
GS-AD Exclusive	Overlap	0.09	192.79	279.47	366.57	60.32
Overlap	Exclusives	0.06	26.50	65.05	50.01	34.36

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-diff-AD Exclusive	111	110	RFPL2
GS-AD Exclusive	21	21	
Overlap	4	4