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)
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137	3.11e-02	2.24e-02	2.07e-02	8.11e-03
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list	2.02e-01	4.76e-01	1.52e-01	2.48e-01
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137 Exclusive	3.94e-02	3.70e-02	3.72e-02	1.31e-02
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list Exclusive	1.63e-01	5.72e-01	3.28e-01	3.00e-01
JimRay_list Exclusive	Overlap	5.17e-01	3.43e-01	5.37e-01	2.81e-01
SigmaEAAD_NIAGADS_R2_137 Exclusive	Overlap	5.17e-01	3.19e-01	1.74e-01	2.05e-01
Overlap	Exclusives	3.44e-02	4.65e-02	1.39e-04	1.85e-03



Evaluating how well JimRay_list genes are linked to SigmaEAAD_NIAGADS_R2_137 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)
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137	0.58	2.13	2.90	2.22	3.62
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list	0.62	2.16	1.67	1.64	1.49
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137 Exclusive	0.58	2.41	2.63	1.94	3.57
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list Exclusive	0.59	1.77	1.02	1.13	1.33
JimRay_list Exclusive	Overlap	0.79	1.74	1.30	1.29	1.80
SigmaEAAD_NIAGADS_R2_137 Exclusive	Overlap	0.82	1.32	1.50	1.87	1.91
Overlap	Exclusives	0.60	1.92	3.10	2.51	4.22

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)
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137	0.01	3.48	5.61	3.46	3.53
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list	0.01	26.25	52.11	22.86	9.32
JimRay_list Exclusive	SigmaEAAD_NIAGADS_R2_137 Exclusive	0.01	3.91	4.94	3.06	5.81
SigmaEAAD_NIAGADS_R2_137 Exclusive	JimRay_list Exclusive	0.01	16.30	26.87	7.15	12.57
JimRay_list Exclusive	Overlap	0.00	4.57	4.13	5.26	5.79
SigmaEAAD_NIAGADS_R2_137 Exclusive	Overlap	0.01	50.90	75.74	61.29	24.40
Overlap	Exclusives	0.01	3.46	6.35	5.05	8.90

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	 
JimRay_list Exclusive	12	12	
SigmaEAAD_NIAGADS_R2_137 Exclusive	135	134	RFPL2
Overlap	2	2