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)
PD_male Exclusive	GWAS	8.87e-01	9.58e-01	9.95e-01	6.99e-02
GWAS Exclusive	PD_male	5.95e-01	5.00e-01	4.36e-02	7.49e-01
PD_male Exclusive	GWAS Exclusive	9.03e-01	9.58e-01	9.92e-01	6.37e-02
GWAS Exclusive	PD_male Exclusive	4.04e-01	4.40e-01	4.33e-02	7.11e-01
PD_male Exclusive	Overlap	6.98e-01	8.15e-01	6.81e-01	9.32e-01
GWAS Exclusive	Overlap	6.05e-01	9.12e-01	5.88e-01	7.62e-01
Overlap	Exclusives	7.14e-05	9.70e-02	5.19e-05	1.82e-03



Evaluating how well PD_male genes are linked to GWAS 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)
PD_male Exclusive	GWAS	0.58	-0.34	-0.01	-0.18	2.41
GWAS Exclusive	PD_male	0.51	0.61	-0.06	0.38	0.49
PD_male Exclusive	GWAS Exclusive	0.58	-0.28	0.03	-0.04	2.65
GWAS Exclusive	PD_male Exclusive	0.51	0.39	-0.20	0.26	0.43
PD_male Exclusive	Overlap	0.50	-0.09	0.05	-0.13	0.19
GWAS Exclusive	Overlap	0.60	1.39	0.52	0.60	0.88
Overlap	Exclusives	0.58	1.79	2.45	2.27	3.64

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)
PD_male Exclusive	GWAS	0.01	-0.31	-0.23	-0.29	1.28
GWAS Exclusive	PD_male	0.01	0.02	0.31	0.63	0.55
PD_male Exclusive	GWAS Exclusive	0.00	-0.28	-0.26	-0.21	1.81
GWAS Exclusive	PD_male Exclusive	0.01	-0.13	-0.33	-0.04	-0.20
PD_male Exclusive	Overlap	0.00	-0.27	-0.18	-0.23	-0.31
GWAS Exclusive	Overlap	0.01	89.92	73.03	39.33	30.06
Overlap	Exclusives	0.01	1.95	2.92	2.79	2.94

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	 
PD_male Exclusive	125	125	
GWAS Exclusive	73	72	CASC16
Overlap	4	4