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)
ATVB Exclusive	Nelson	5.26e-01	6.72e-01	2.19e-02	1.10e-04
Nelson Exclusive	ATVB	1.80e-01	5.97e-01	6.45e-02	7.18e-01
ATVB Exclusive	Nelson Exclusive	5.54e-01	6.91e-01	4.73e-02	1.99e-04
Nelson Exclusive	ATVB Exclusive	4.90e-01	7.23e-01	1.45e-01	5.76e-01
ATVB Exclusive	Overlap	5.03e-01	8.46e-01	4.06e-01	6.40e-01
Nelson Exclusive	Overlap	1.30e-03	5.02e-03	1.35e-03	1.80e-03
Overlap	Exclusives	3.28e-06	1.18e-06	2.21e-27	8.74e-09



Evaluating how well ATVB genes are linked to Nelson 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)
ATVB Exclusive	Nelson	0.56	-0.30	0.35	-0.44	2.96
Nelson Exclusive	ATVB	0.51	2.23	1.30	0.93	0.36
ATVB Exclusive	Nelson Exclusive	0.56	-0.27	0.36	-0.28	3.37
Nelson Exclusive	ATVB Exclusive	0.48	1.44	0.56	0.31	-0.69
ATVB Exclusive	Overlap	0.57	-0.37	-0.10	-0.29	0.76
Nelson Exclusive	Overlap	0.90	4.35	3.41	2.72	2.82
Overlap	Exclusives	0.62	2.25	5.14	1.91	8.25

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)
ATVB Exclusive	Nelson	0.02	-0.20	0.43	-0.36	1.58
Nelson Exclusive	ATVB	0.02	73.22	47.85	35.70	26.09
ATVB Exclusive	Nelson Exclusive	0.02	-0.21	0.35	-0.30	1.59
Nelson Exclusive	ATVB Exclusive	0.00	2.15	0.49	-0.50	-0.86
ATVB Exclusive	Overlap	0.00	-0.04	0.11	0.03	0.76
Nelson Exclusive	Overlap	0.27	493.53	592.72	490.18	518.96
Overlap	Exclusives	0.05	14.03	29.20	11.16	33.98

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	 
ATVB Exclusive	82	82	
Nelson Exclusive	295	288	MIR3134;MGC34034;POM121L9P;LPAL2;MIR3169;CDKN2BAS;RPL23AP7
Overlap	5	5