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	2.43e-01	6.27e-01	9.67e-02	4.04e-01
GeneGroup2 Exclusive	GeneGroup1	5.37e-01	6.68e-01	2.92e-04	7.90e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	2.03e-01	5.19e-01	1.03e-01	4.73e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	4.45e-01	8.90e-01	8.51e-05	6.50e-01
GeneGroup1 Exclusive	Overlap	2.78e-01	9.92e-02	2.17e-01	3.67e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	5.63e-03	2.41e-01	4.10e-16	1.35e-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	0.61	-1.32	-0.54	-1.10	1.12
GeneGroup2 Exclusive	GeneGroup1	0.49	1.99	1.10	0.69	-0.16
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.59	-1.27	-0.89	-1.23	1.07
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.48	2.53	0.86	1.00	-0.27
GeneGroup1 Exclusive	Overlap	0.78	-0.69	2579287648100135.00	-0.56	0.99
GeneGroup2 Exclusive	Overlap	1.00	1.71	2332749530258531.00	2.22	1.40
Overlap	Exclusives	0.54	1127408025857623.00	2.19	0.82	1.31

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	0.25	2.13	0.08	-0.11
GeneGroup2 Exclusive	GeneGroup1	0.00	2.18	0.59	0.00	0.69
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	0.62	1.46	0.41	1.48
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	1.77	0.09	0.19	-0.05
GeneGroup1 Exclusive	Overlap	0.00	-0.61	inf	-0.27	0.30
GeneGroup2 Exclusive	Overlap	0.01	30.36	240892096335777280.00	76.53	25.55
Overlap	Exclusives	0.01	inf	5.73	3.98	5.41

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	12	10	;Parkin
Overlap	1	1