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	GeneEMbed_85	3.92e-02	1.93e-01	4.30e-03	1.86e-12
GeneEMbed_85 Exclusive	Feixiong group AD test	3.23e-02	9.45e-03	3.20e-20	3.59e-04
Feixiong group AD test Exclusive	GeneEMbed_85 Exclusive	1.25e-01	5.21e-01	3.10e-02	2.48e-10
GeneEMbed_85 Exclusive	Feixiong group AD test Exclusive	3.38e-02	7.98e-03	4.86e-19	9.98e-04
Feixiong group AD test Exclusive	Overlap	2.11e-02	4.33e-03	1.04e-02	7.00e-06
GeneEMbed_85 Exclusive	Overlap	1.56e-01	7.23e-01	7.41e-03	3.94e-02
Overlap	Exclusives	1.12e-06	1.37e-09	7.24e-73	3.43e-17



Evaluating how well Feixiong group AD test genes are linked to GeneEMbed_85 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	GeneEMbed_85	0.77	-0.01	0.77	0.76	8.59
GeneEMbed_85 Exclusive	Feixiong group AD test	0.55	1.14	2.40	2.14	3.74
Feixiong group AD test Exclusive	GeneEMbed_85 Exclusive	0.75	-0.66	-0.36	0.03	7.45
GeneEMbed_85 Exclusive	Feixiong group AD test Exclusive	0.55	0.93	2.50	1.91	3.00
Feixiong group AD test Exclusive	Overlap	0.94	3.22	2.91	2.78	4.21
GeneEMbed_85 Exclusive	Overlap	0.77	0.18	-0.83	1.10	2.38
Overlap	Exclusives	0.64	6.07	10.67	3.61	10.52

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	GeneEMbed_85	0.02	1.85	5.14	2.61	26.08
GeneEMbed_85 Exclusive	Feixiong group AD test	0.03	2.02	2.86	2.92	4.30
Feixiong group AD test Exclusive	GeneEMbed_85 Exclusive	0.01	-0.46	1.52	0.56	11.19
GeneEMbed_85 Exclusive	Feixiong group AD test Exclusive	0.03	1.91	3.30	2.46	3.12
Feixiong group AD test Exclusive	Overlap	0.02	32.97	49.04	46.80	36.73
GeneEMbed_85 Exclusive	Overlap	0.00	0.83	-2.28	3.71	0.81
Overlap	Exclusives	0.06	13.80	29.30	13.19	32.30

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	441	421	IGHV2-70;IGHV4-61;IGHV3-66;APOC4-APOC2;IGHV4-59;IGHV1-58;IGHV3-73;IGHV3-72;IGHG3;ATP6V1G2-DDX39B;TRIM39-RPP21;IGHV1-69;IGHV3-64;OR2J1;IGHA1;IGHV3-53;IGHG2;IGHV3-74;IGHG1;C17orf107
GeneEMbed_85 Exclusive	78	78	
Overlap	7	7