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	Meta_GS	3.06e-01	1.08e-01	1.96e-01	1.91e-03
Meta_GS Exclusive	PD_male	6.48e-01	6.69e-01	6.58e-03	4.88e-01
PD_male Exclusive	Meta_GS Exclusive	5.90e-01	2.33e-01	3.21e-01	5.77e-03
Meta_GS Exclusive	PD_male Exclusive	7.80e-01	7.11e-01	1.68e-02	5.36e-01
PD_male Exclusive	Overlap	1.02e-02	3.06e-02	8.54e-03	4.95e-02
Meta_GS Exclusive	Overlap	1.19e-01	2.22e-01	1.45e-01	2.61e-01
Overlap	Exclusives	2.79e-04	9.29e-03	8.29e-02	9.11e-05



Evaluating how well PD_male genes are linked to Meta_GS 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	Meta_GS	0.62	1.62	2.32	2.04	3.31
Meta_GS Exclusive	PD_male	0.53	1.10	0.56	0.82	1.00
PD_male Exclusive	Meta_GS Exclusive	0.61	1.13	1.87	1.19	2.95
Meta_GS Exclusive	PD_male Exclusive	0.52	0.89	0.38	0.75	0.70
PD_male Exclusive	Overlap	0.83	2.91	2.31	3.10	2.00
Meta_GS Exclusive	Overlap	0.71	2.82	1.72	1.81	1.49
Overlap	Exclusives	0.59	3.08	3.60	2.84	4.60

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	Meta_GS	0.01	0.70	-0.08	0.81	1.88
Meta_GS Exclusive	PD_male	0.01	0.81	1.65	1.29	0.99
PD_male Exclusive	Meta_GS Exclusive	0.01	0.25	-0.13	0.21	1.89
Meta_GS Exclusive	PD_male Exclusive	0.01	0.11	0.42	0.87	0.11
PD_male Exclusive	Overlap	0.00	1.55	0.87	3.72	0.01
Meta_GS Exclusive	Overlap	0.01	40.57	12.20	11.85	13.16
Overlap	Exclusives	0.02	6.71	5.94	6.38	10.71

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	126	126	
Meta_GS Exclusive	81	79	RP11-297N6.4;TTC6
Overlap	3	3