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	6.07e-01	9.83e-01	3.50e-01	1.29e-01
GeneGroup2 Exclusive	GeneGroup1	4.87e-01	4.41e-01	2.21e-04	4.00e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	6.02e-01	8.61e-01	4.54e-01	2.43e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	5.35e-01	7.04e-01	2.52e-04	3.21e-01
GeneGroup1 Exclusive	Overlap	2.28e-01	9.92e-02	2.65e-01	3.35e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	2.76e-03	2.84e-01	8.63e-19	1.31e-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	-0.54	0.23	-0.37	1.79
GeneGroup2 Exclusive	GeneGroup1	0.49	1.35	0.74	0.84	-0.38
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.62	-0.56	-0.29	-0.30	1.73
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.47	1.37	0.51	0.60	-0.69
GeneGroup1 Exclusive	Overlap	0.78	-1.03	2579287648100134.00	-0.44	0.76
GeneGroup2 Exclusive	Overlap	1.00	1.79	2173637397101378.00	2.11	1.57
Overlap	Exclusives	0.54	1112979169637143.00	2.17	0.82	1.20

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	0.04	1.18	0.14	0.81
GeneGroup2 Exclusive	GeneGroup1	0.00	1.93	1.31	0.23	1.27
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	0.13	1.44	0.30	-0.05
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	0.98	0.20	0.03	-0.16
GeneGroup1 Exclusive	Overlap	0.00	-0.66	inf	-0.32	-0.15
GeneGroup2 Exclusive	Overlap	0.02	52.02	610962450151615616.00	49.58	39.39
Overlap	Exclusives	0.01	9900608170341920.00	5.61	2.06	1.88

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