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	5.91e-01	7.50e-01	7.50e-03	1.22e-02
GeneGroup2 Exclusive	GeneGroup1	4.99e-01	1.37e-01	4.76e-05	7.05e-06
GeneGroup1 Exclusive	GeneGroup2 Exclusive	6.01e-01	7.76e-01	3.03e-03	5.38e-03
GeneGroup2 Exclusive	GeneGroup1 Exclusive	5.04e-01	1.20e-01	2.95e-05	2.09e-06
GeneGroup1 Exclusive	Overlap	5.30e-01	9.93e-01	9.92e-02	8.11e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	5.10e-01	1.05e-01	9.92e-02
Overlap	Exclusives	5.07e-01	4.56e-02	9.64e-02	4.97e-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	0.46	-0.37	1.58	-2.55
GeneGroup2 Exclusive	GeneGroup1	0.74	-0.88	-4.35	-0.97	-10.47
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.84	0.22	-0.21	1.45	-3.21
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.73	-0.79	-4.45	-1.03	-9.38
GeneGroup1 Exclusive	Overlap	0.97	0.49	-0.44	nan	0.45
GeneGroup2 Exclusive	Overlap	1.00	1.00	1.19	nan	0.99
Overlap	Exclusives	0.71	-1.07	-3.54	-1.02	-7.98

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	-0.22	-0.26	-0.01	-1.15
GeneGroup2 Exclusive	GeneGroup1	0.00	0.15	0.39	1.04	-0.90
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	-0.25	-0.18	-0.17	-1.32
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	-0.32	-0.34	-0.64	-2.48
GeneGroup1 Exclusive	Overlap	0.00	-0.16	-0.62	nan	-0.32
GeneGroup2 Exclusive	Overlap	0.03	4.72	1.42	nan	49.58
Overlap	Exclusives	0.01	1.56	12.20	29.49	11.46

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