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)
GeneGroup1 Exclusive	GeneGroup2	5.26e-01	9.75e-01	3.62e-01	1.33e-01
GeneGroup2 Exclusive	GeneGroup1	4.49e-01	4.75e-01	3.89e-04	3.74e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	5.19e-01	7.08e-01	3.02e-01	4.36e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	4.73e-01	6.55e-01	7.20e-04	3.34e-01
GeneGroup1 Exclusive	Overlap	1.95e-01	9.92e-02	2.28e-01	3.51e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	2.76e-03	2.43e-01	3.56e-18	1.89e-01



Evaluating how well GeneGroup1 genes are linked to GeneGroup2 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)
GeneGroup1 Exclusive	GeneGroup2	0.64	-0.75	0.09	-0.46	1.95
GeneGroup2 Exclusive	GeneGroup1	0.49	1.53	0.57	0.70	-0.52
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.62	-0.52	-0.54	-0.46	1.26
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.47	1.56	0.54	0.75	-0.74
GeneGroup1 Exclusive	Overlap	0.78	-0.91	2579287648100134.00	-0.58	0.81
GeneGroup2 Exclusive	Overlap	1.00	1.85	2173637397101378.00	1.99	1.61
Overlap	Exclusives	0.54	1112979169637143.00	2.13	0.65	1.23

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)
GeneGroup1 Exclusive	GeneGroup2	0.00	-0.16	1.21	0.24	0.58
GeneGroup2 Exclusive	GeneGroup1	0.00	2.73	0.64	0.52	0.43
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	-0.03	0.80	0.19	0.32
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	1.61	-0.02	0.52	-0.18
GeneGroup1 Exclusive	Overlap	0.00	-0.70	inf	-0.57	-0.20
GeneGroup2 Exclusive	Overlap	0.02	36.40	610962450151615616.00	66.73	15.44
Overlap	Exclusives	0.01	9900608170341920.00	8.21	3.86	4.39

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	 
GeneGroup1 Exclusive	49	49	
GeneGroup2 Exclusive	13	12	Parkin
Overlap	1	1