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)
9K_mu_Z_35 Exclusive	25GS	1.51e-06	1.83e-06	6.12e-05	1.71e-07
25GS Exclusive	9K_mu_Z_35	3.06e-01	3.91e-01	2.17e-02	3.94e-01
9K_mu_Z_35 Exclusive	25GS Exclusive	1.72e-05	1.44e-05	2.78e-04	9.91e-06
25GS Exclusive	9K_mu_Z_35 Exclusive	7.83e-01	6.50e-01	1.25e-02	9.12e-01
9K_mu_Z_35 Exclusive	Overlap	2.91e-02	4.18e-02	5.62e-02	6.27e-03
25GS Exclusive	Overlap	4.17e-10	7.33e-07	1.57e-10	1.49e-08
Overlap	Exclusives	1.99e-02	2.02e-02	1.25e-08	2.70e-02



Evaluating how well 9K_mu_Z_35 genes are linked to 25GS 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)
9K_mu_Z_35 Exclusive	25GS	0.80	2.99	5.75	2.88	5.82
25GS Exclusive	9K_mu_Z_35	0.54	2.71	1.82	2.21	1.41
9K_mu_Z_35 Exclusive	25GS Exclusive	0.78	2.71	4.55	2.56	4.62
25GS Exclusive	9K_mu_Z_35 Exclusive	0.51	2.10	1.15	1.68	0.56
9K_mu_Z_35 Exclusive	Overlap	0.86	2.09	2.37	1.82	2.95
25GS Exclusive	Overlap	0.99	3.64	3.10	3.03	3.74
Overlap	Exclusives	0.58	2.64	3.96	3.43	2.82

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)
9K_mu_Z_35 Exclusive	25GS	0.01	12.98	21.60	10.72	16.61
25GS Exclusive	9K_mu_Z_35	0.02	9.44	19.78	18.36	19.26
9K_mu_Z_35 Exclusive	25GS Exclusive	0.01	11.34	20.80	6.24	19.42
25GS Exclusive	9K_mu_Z_35 Exclusive	0.01	5.11	4.69	5.31	7.77
9K_mu_Z_35 Exclusive	Overlap	0.00	5.54	6.04	2.04	5.58
25GS Exclusive	Overlap	0.06	189.53	137.13	206.06	192.24
Overlap	Exclusives	0.05	32.20	101.37	73.96	80.50

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	 
9K_mu_Z_35 Exclusive	88	85	;PRAMEF11;RFPL2
25GS Exclusive	20	19	HLA -DRB1
Overlap	5	5