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	4.77e-01	9.87e-01	3.01e-01	1.77e-01
GeneGroup2 Exclusive	GeneGroup1	4.04e-01	5.46e-01	8.75e-04	3.82e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	5.63e-01	9.24e-01	2.95e-01	2.21e-01
GeneGroup2 Exclusive	GeneGroup1 Exclusive	4.87e-01	7.14e-01	1.20e-03	3.06e-01
GeneGroup1 Exclusive	Overlap	2.65e-01	9.92e-02	2.28e-01	2.28e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	2.76e-03	2.72e-01	1.57e-17	1.89e-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	-0.65	0.13	-0.53	1.71
GeneGroup2 Exclusive	GeneGroup1	0.49	1.48	0.46	0.64	-0.48
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.62	-0.71	-0.19	-0.53	1.49
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.47	1.29	0.58	0.78	-0.59
GeneGroup1 Exclusive	Overlap	0.78	-0.69	2579287648100134.00	-0.66	1.11
GeneGroup2 Exclusive	Overlap	1.00	1.78	2173637397101378.00	2.14	1.83
Overlap	Exclusives	0.54	1112979169637144.00	2.47	1.01	0.98

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	-0.08	1.12	0.02	1.57
GeneGroup2 Exclusive	GeneGroup1	0.00	1.51	0.57	0.50	0.66
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	0.08	1.41	0.15	1.82
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	0.99	0.22	0.05	-0.12
GeneGroup1 Exclusive	Overlap	0.00	-0.71	inf	-0.53	-0.12
GeneGroup2 Exclusive	Overlap	0.02	58.24	610962450151615616.00	93.40	71.51
Overlap	Exclusives	0.01	9900608170341920.00	7.76	4.40	6.69

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