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)
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184	4.45e-02	1.84e-01	1.91e-02	8.57e-03
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test	5.30e-01	4.66e-01	3.41e-01	2.13e-01
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184 Exclusive	5.83e-02	3.68e-01	4.98e-01	4.51e-02
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test Exclusive	5.78e-01	4.72e-01	2.51e-01	2.03e-01
Feixiong group AD test Exclusive	Overlap	5.02e-10	5.87e-08	1.11e-10	1.30e-09
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Overlap	4.23e-01	4.60e-01	2.79e-01	2.98e-01
Overlap	Exclusives	9.57e-13	4.86e-15	9.78e-16	7.34e-17



Evaluating how well Feixiong group AD test genes are linked to Sigma_AD_WGS_Regulome_R4_184 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)
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184	0.56	2.78	2.52	2.77	3.62
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test	0.51	0.03	-1.07	0.13	0.95
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184 Exclusive	0.52	-0.05	-0.32	0.05	1.01
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test Exclusive	0.51	0.01	-1.13	0.21	0.93
Feixiong group AD test Exclusive	Overlap	0.84	8.48	7.44	7.67	6.42
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Overlap	0.53	0.26	-0.21	0.14	0.46
Overlap	Exclusives	0.62	6.74	10.70	5.84	10.05

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)
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184	0.02	11.47	7.62	11.93	7.95
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test	0.02	-0.76	-1.80	-0.39	-0.26
Feixiong group AD test Exclusive	Sigma_AD_WGS_Regulome_R4_184 Exclusive	0.01	-0.70	-0.57	-0.55	-0.02
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Feixiong group AD test Exclusive	0.02	-0.67	-1.64	-0.32	-0.02
Feixiong group AD test Exclusive	Overlap	0.03	107.91	75.86	127.89	60.53
Sigma_AD_WGS_Regulome_R4_184 Exclusive	Overlap	0.00	-0.50	-0.94	-0.38	-0.35
Overlap	Exclusives	0.08	28.53	47.23	22.93	41.12

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	 
Feixiong group AD test Exclusive	425	405	IGHV3-66;APOC4-APOC2;TRIM39-RPP21;IGHV3-73;IGHV3-53;IGHV1-69;C17orf107;IGHV2-70;IGHV3-72;IGHV1-58;IGHV4-61;ATP6V1G2-DDX39B;OR2J1;IGHV4-59;IGHG3;IGHG1;IGHG2;IGHA1;IGHV3-64;IGHV3-74
Sigma_AD_WGS_Regulome_R4_184 Exclusive	161	154	PRAMEF15;TAF11L13;AC005779.2;TNFSF12-TNFSF13;LINC02210-CRHR1;AL451062.3;TMEM191C
Overlap	23	23