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	6.03e-01	6.52e-01	6.80e-03	1.65e-02
GeneGroup2 Exclusive	GeneGroup1	6.20e-01	1.07e-01	1.98e-05	1.86e-05
GeneGroup1 Exclusive	GeneGroup2 Exclusive	5.95e-01	6.39e-01	3.63e-03	2.79e-03
GeneGroup2 Exclusive	GeneGroup1 Exclusive	5.47e-01	1.23e-01	5.81e-05	2.86e-06
GeneGroup1 Exclusive	Overlap	5.30e-01	9.82e-01	9.92e-02	6.93e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	4.35e-01	9.92e-02	9.92e-02
Overlap	Exclusives	5.38e-01	5.35e-02	9.98e-02	5.04e-07



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	0.85	0.31	-0.37	1.49	-2.53
GeneGroup2 Exclusive	GeneGroup1	0.74	-0.71	-4.99	-0.98	-8.56
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.84	0.16	-0.36	1.40	-3.81
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.73	-0.95	-4.09	-1.10	-10.51
GeneGroup1 Exclusive	Overlap	0.97	0.44	-0.51	nan	0.50
GeneGroup2 Exclusive	Overlap	1.00	0.96	1.29	2.40	0.84
Overlap	Exclusives	0.71	-1.01	-3.58	-1.02	-8.22

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	-0.21	-0.19	-0.13	-0.75
GeneGroup2 Exclusive	GeneGroup1	0.00	0.50	0.08	3.41	-0.26
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	-0.38	-0.17	-0.07	-1.41
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	-0.35	-0.21	-0.73	-2.47
GeneGroup1 Exclusive	Overlap	0.00	-0.25	-0.71	nan	-0.24
GeneGroup2 Exclusive	Overlap	0.03	6.00	1.56	145.87	18.44
Overlap	Exclusives	0.01	1.53	8.25	2.38	12.80

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	25	PHF21B;PRAMEF1;ZNF488;PRAMEF10;TRIM51;ST3GAL5;PRAMEF6;SEZ6;ALPP;PRAMEF12;OR4C6;CRYGB;WFDC10B;CCDC83;PDCD6IP;WFDC8;ZNF528;EMID1;KRT27;OR52J3;RARS;OR7A5;PRAMEF20;RNASE9
GeneGroup2 Exclusive	11	8	DJ-1;Parkin;GBA
Overlap	1	1