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	1.26e-01	2.07e-01	1.92e-02	7.66e-04
GeneGroup2 Exclusive	GeneGroup1	6.25e-02	6.78e-01	9.47e-04	1.34e-01
GeneGroup1 Exclusive	GeneGroup2 Exclusive	2.37e-01	4.16e-01	3.49e-02	4.83e-03
GeneGroup2 Exclusive	GeneGroup1 Exclusive	3.09e-02	7.45e-01	5.61e-04	1.39e-01
GeneGroup1 Exclusive	Overlap	6.53e-01	3.96e-01	2.38e-01	3.96e-01
GeneGroup2 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	7.19e-03	4.74e-03	1.12e-04	5.53e-03



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	0.80	1.84	2.03	1.85	3.87
GeneGroup2 Exclusive	GeneGroup1	0.57	-0.59	0.95	1.22	1.92
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.80	1.56	1.66	1.92	3.36
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.56	-0.86	0.67	0.89	1.72
GeneGroup1 Exclusive	Overlap	0.78	0.68	1.09	1.22	1.01
GeneGroup2 Exclusive	Overlap	1.00	5.05	1.58	2.86	1.52
Overlap	Exclusives	0.58	0.34	0.41	0.49	2.34

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	1.26	-0.38	0.57	1.86
GeneGroup2 Exclusive	GeneGroup1	0.01	1.66	9.68	14.67	3.62
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	1.14	-0.50	1.04	3.41
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	0.04	1.69	2.21	2.08
GeneGroup1 Exclusive	Overlap	0.00	-0.12	-0.17	0.51	0.18
GeneGroup2 Exclusive	Overlap	0.25	1634.22	398.25	767.65	298.78
Overlap	Exclusives	0.02	13.69	33.05	15.52	11.81

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	63	61	TMEM191C;CHURC1-FNTB
GeneGroup2 Exclusive	13	13	
Overlap	1	1