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	EPI_106	1.63e-02	7.77e-02	6.51e-03	3.17e-02
EPI_106 Exclusive	Feixiong group AD test	6.49e-01	9.51e-01	3.27e-01	1.58e-01
Feixiong group AD test Exclusive	EPI_106 Exclusive	1.81e-01	5.83e-01	2.44e-01	5.87e-01
EPI_106 Exclusive	Feixiong group AD test Exclusive	2.25e-01	9.65e-01	1.33e-01	3.13e-01
Feixiong group AD test Exclusive	Overlap	4.23e-08	6.15e-09	1.55e-08	4.54e-09
EPI_106 Exclusive	Overlap	9.89e-01	8.90e-01	9.55e-01	9.84e-01
Overlap	Exclusives	1.27e-09	1.28e-14	1.50e-13	2.79e-15



Evaluating how well Feixiong group AD test genes are linked to EPI_106 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	EPI_106	0.57	3.25	3.03	3.55	2.68
EPI_106 Exclusive	Feixiong group AD test	0.52	0.72	0.33	0.76	1.52
Feixiong group AD test Exclusive	EPI_106 Exclusive	0.52	0.33	0.29	0.42	0.60
EPI_106 Exclusive	Feixiong group AD test Exclusive	0.52	1.24	0.25	0.70	1.64
Feixiong group AD test Exclusive	Overlap	0.88	8.11	6.73	6.84	5.06
EPI_106 Exclusive	Overlap	0.48	-0.45	-0.71	-0.23	-0.26
Overlap	Exclusives	0.62	6.29	11.30	5.60	9.82

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	EPI_106	0.03	58.49	24.37	13.43	38.52
EPI_106 Exclusive	Feixiong group AD test	0.02	0.45	0.23	0.68	0.89
Feixiong group AD test Exclusive	EPI_106 Exclusive	0.01	1.03	0.90	0.78	0.51
EPI_106 Exclusive	Feixiong group AD test Exclusive	0.02	0.80	0.24	0.64	0.80
Feixiong group AD test Exclusive	Overlap	0.12	482.33	379.51	69.01	192.19
EPI_106 Exclusive	Overlap	0.00	-0.30	-0.67	-0.30	-0.17
Overlap	Exclusives	0.07	27.43	50.29	23.67	46.96

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	433	413	IGHV3-53;IGHV3-73;IGHV2-70;OR2J1;APOC4-APOC2;IGHG1;IGHV1-58;C17orf107;IGHV3-64;IGHV1-69;IGHG3;TRIM39-RPP21;IGHV3-66;IGHV4-59;ATP6V1G2-DDX39B;IGHG2;IGHV4-61;IGHV3-72;IGHA1;IGHV3-74
EPI_106 Exclusive	91	89	AL162417.1;RFPL2
Overlap	15	15