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)
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial	6.01e-04	5.26e-07	4.29e-11	1.24e-09
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned	4.17e-04	5.84e-02	4.19e-07	5.94e-08
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial Exclusive	3.16e-03	3.44e-05	2.13e-08	5.45e-08
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	4.48e-03	1.53e-01	3.67e-07	1.50e-07
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	Overlap	7.46e-03	2.57e-03	1.38e-03	4.84e-03
AD-Familial Exclusive	Overlap	1.38e-03	1.38e-03	1.38e-03	1.38e-03
Overlap	Exclusives	1.45e-03	2.83e-02	3.89e-15	2.80e-10



Evaluating how well ADSP_OldLabels_10K_UKBAC1_cases_cleaned genes are linked to AD-Familial 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)
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial	0.93	2.54	6.07	2.91	5.86
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned	0.67	1.59	1.79	0.87	6.34
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial Exclusive	0.93	2.68	4.83	3.16	4.69
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	0.66	1.03	1.41	0.60	5.92
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	Overlap	0.95	2.09	3.28	2.28	2.70
AD-Familial Exclusive	Overlap	1.00	8.81	3.06	2.46	2.97
Overlap	Exclusives	0.69	1.55	3.11	1.05	8.02

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)
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial	0.01	0.33	11.21	3.02	7.28
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned	0.03	20.51	20.21	15.13	40.03
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	AD-Familial Exclusive	0.00	-0.13	10.64	4.74	9.48
AD-Familial Exclusive	ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	0.02	4.86	7.28	5.97	17.02
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	Overlap	0.00	0.47	6.92	2.53	4.66
AD-Familial Exclusive	Overlap	0.36	865.09	1825.64	360.29	808.04
Overlap	Exclusives	0.03	10.79	22.73	6.40	22.11

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	 
ADSP_OldLabels_10K_UKBAC1_cases_cleaned Exclusive	125	125	
AD-Familial Exclusive	11	11	
Overlap	3	3