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_female Exclusive	GWAS	9.27e-01	9.97e-01	8.48e-01	1.83e-01
GWAS Exclusive	PD_female	2.95e-01	1.63e-01	1.15e-03	3.34e-02
PD_female Exclusive	GWAS Exclusive	9.59e-01	9.98e-01	8.56e-01	8.46e-02
GWAS Exclusive	PD_female Exclusive	5.47e-01	2.07e-01	2.82e-03	4.86e-02
PD_female Exclusive	Overlap	2.38e-01	4.78e-01	4.78e-01	4.40e-01
GWAS Exclusive	Overlap	7.30e-02	1.06e-01	2.59e-01	2.52e-01
Overlap	Exclusives	2.77e-03	2.29e-02	7.59e-01	1.73e-03



Evaluating how well PD_female 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_female Exclusive	GWAS	0.57	-0.39	-0.31	-0.22	2.22
GWAS Exclusive	PD_female	0.55	0.77	0.66	0.77	1.93
PD_female Exclusive	GWAS Exclusive	0.58	-0.14	-0.08	-0.14	2.17
GWAS Exclusive	PD_female Exclusive	0.54	0.09	0.30	0.45	1.61
PD_female Exclusive	Overlap	0.33	-1.46	-1.03	-0.97	-0.66
GWAS Exclusive	Overlap	0.82	2.68	2.17	1.35	1.72
Overlap	Exclusives	0.59	0.69	2.42	0.96	4.03

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_female Exclusive	GWAS	0.01	-0.13	-0.48	0.14	1.70
GWAS Exclusive	PD_female	0.01	0.72	0.37	0.83	1.17
PD_female Exclusive	GWAS Exclusive	0.01	-0.11	-0.36	0.21	1.40
GWAS Exclusive	PD_female Exclusive	0.01	-0.12	0.12	0.20	0.66
PD_female Exclusive	Overlap	0.00	-0.24	-0.18	-0.51	-0.26
GWAS Exclusive	Overlap	0.00	6.39	1.41	0.90	0.17
Overlap	Exclusives	0.01	1.14	2.78	1.48	2.67

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_female Exclusive	90	90	
GWAS Exclusive	75	74	CASC16
Overlap	2	2