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)
osteoControls_go Exclusive	osteoJO	9.54e-03	6.33e-03	3.79e-08	1.41e-09
osteoJO Exclusive	osteoControls_go	5.73e-02	4.72e-02	8.82e-05	9.53e-05
osteoControls_go Exclusive	osteoJO Exclusive	3.70e-02	2.16e-02	1.10e-07	6.84e-09
osteoJO Exclusive	osteoControls_go Exclusive	3.81e-02	8.51e-02	2.61e-04	3.71e-05
osteoControls_go Exclusive	Overlap	4.95e-02	1.08e-02	9.63e-03	1.00e-01
osteoJO Exclusive	Overlap	7.71e-02	7.71e-02	7.71e-02	9.38e-02
Overlap	Exclusives	1.50e-21	9.23e-21	3.10e-07	2.73e-32



Evaluating how well osteoControls_go genes are linked to osteoJO 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)
osteoControls_go Exclusive	osteoJO	0.67	2.96	4.85	2.95	6.79
osteoJO Exclusive	osteoControls_go	0.62	1.44	2.53	1.99	5.53
osteoControls_go Exclusive	osteoJO Exclusive	0.67	2.51	3.28	2.16	7.19
osteoJO Exclusive	osteoControls_go Exclusive	0.61	1.07	2.51	1.66	5.12
osteoControls_go Exclusive	Overlap	0.81	2.90	3.33	2.70	1.83
osteoJO Exclusive	Overlap	0.75	3.17	2.96	2.74	1.37
Overlap	Exclusives	0.72	4.31	10.80	3.20	12.67

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)
osteoControls_go Exclusive	osteoJO	0.01	1.32	1.76	2.13	6.69
osteoJO Exclusive	osteoControls_go	0.02	4.49	8.03	7.72	13.83
osteoControls_go Exclusive	osteoJO Exclusive	0.01	1.04	0.73	1.29	3.90
osteoJO Exclusive	osteoControls_go Exclusive	0.01	0.47	1.67	2.23	4.92
osteoControls_go Exclusive	Overlap	0.00	0.41	3.52	0.30	-0.06
osteoJO Exclusive	Overlap	0.33	2123.93	5147.77	578.72	478.32
Overlap	Exclusives	0.05	10.45	32.75	10.43	38.81

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	 
osteoControls_go Exclusive	188	188	
osteoJO Exclusive	123	123	
Overlap	3	3