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	4.32e-01	9.82e-01	2.99e-01	1.84e-01
GeneGroup2 Exclusive	GeneGroup1	4.30e-01	4.60e-01	4.87e-04	4.90e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	5.53e-01	8.57e-01	4.60e-01	2.68e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	4.81e-01	6.97e-01	2.02e-04	3.35e-01
GeneGroup1 Exclusive	Overlap	2.18e-01	1.98e-02	3.17e-01	4.36e-01
GeneGroup2 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	2.81e-03	2.32e-01	2.69e-19	1.69e-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	-0.64	0.15	-0.43	1.62
GeneGroup2 Exclusive	GeneGroup1	0.49	1.67	0.76	0.74	-0.24
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.62	-0.64	-0.25	-0.30	1.38
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.47	1.39	0.54	1.04	-0.71
GeneGroup1 Exclusive	Overlap	0.78	-0.85	2579287648100134.00	-0.59	1.00
GeneGroup2 Exclusive	Overlap	1.00	1.92	2173637397101378.00	2.05	2.03
Overlap	Exclusives	0.54	2225958339274288.00	2.28	0.77	0.91

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	-0.13	1.29	0.07	1.66
GeneGroup2 Exclusive	GeneGroup1	0.00	2.26	0.70	0.10	0.66
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	0.04	1.26	0.42	1.44
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	1.15	0.18	0.83	-0.10
GeneGroup1 Exclusive	Overlap	0.00	-0.72	inf	-0.38	-0.11
GeneGroup2 Exclusive	Overlap	0.02	114.35	610962450151615616.00	17.63	115.56
Overlap	Exclusives	0.01	9900608170341924.00	8.35	1.89	6.36

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