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	4.42e-01	9.62e-01	3.05e-01	2.60e-01
GeneGroup2 Exclusive	GeneGroup1	4.91e-01	4.69e-01	5.11e-04	4.14e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	7.18e-01	9.30e-01	2.88e-01	2.29e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	5.16e-01	7.11e-01	5.91e-04	3.39e-01
GeneGroup1 Exclusive	Overlap	2.52e-01	9.92e-02	3.06e-01	2.78e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	1.05e-01
Overlap	Exclusives	2.76e-03	2.26e-01	3.20e-17	1.71e-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	-0.79	-0.05	-0.41	1.45
GeneGroup2 Exclusive	GeneGroup1	0.49	1.38	0.82	0.92	-0.23
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.62	-0.46	-0.23	-0.59	1.48
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.47	1.28	0.38	0.53	-0.55
GeneGroup1 Exclusive	Overlap	0.78	-0.68	2579287648100134.00	-0.50	1.03
GeneGroup2 Exclusive	Overlap	1.00	1.82	2173637397101378.00	2.17	1.72
Overlap	Exclusives	0.54	2225958339274286.00	2.05	0.92	1.22

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)
GeneGroup1 Exclusive	GeneGroup2	0.00	-0.05	1.34	0.05	0.17
GeneGroup2 Exclusive	GeneGroup1	0.00	2.43	0.91	0.49	0.63
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	-0.08	1.05	0.05	0.94
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	0.78	-0.06	0.04	-0.01
GeneGroup1 Exclusive	Overlap	0.00	-0.63	inf	-0.57	0.03
GeneGroup2 Exclusive	Overlap	0.02	63.87	610962450151615616.00	93.03	6.58
Overlap	Exclusives	0.01	9900608170341920.00	7.86	4.99	6.09

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