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	6.85e-01	7.31e-01	6.67e-03	1.90e-02
GeneGroup2 Exclusive	GeneGroup1	5.27e-01	1.24e-01	2.03e-05	1.02e-05
GeneGroup1 Exclusive	GeneGroup2 Exclusive	5.40e-01	6.86e-01	3.45e-03	4.04e-03
GeneGroup2 Exclusive	GeneGroup1 Exclusive	5.67e-01	1.01e-01	5.59e-05	3.12e-06
GeneGroup1 Exclusive	Overlap	4.53e-01	9.44e-01	9.92e-02	7.14e-01
GeneGroup2 Exclusive	Overlap	9.92e-02	4.35e-01	9.92e-02	9.92e-02
Overlap	Exclusives	4.93e-01	6.09e-02	1.30e-01	2.18e-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	0.15	-0.32	1.32	-2.21
GeneGroup2 Exclusive	GeneGroup1	0.74	-0.77	-5.80	-0.78	-9.43
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.84	0.30	-0.35	1.50	-3.11
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.73	-1.15	-4.92	-0.73	-11.40
GeneGroup1 Exclusive	Overlap	0.97	0.52	-0.66	nan	0.55
GeneGroup2 Exclusive	Overlap	1.00	1.12	1.33	1.79	0.88
Overlap	Exclusives	0.71	-1.07	-3.08	-0.78	-8.71

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	-0.35	-0.28	-0.10	-1.09
GeneGroup2 Exclusive	GeneGroup1	0.00	0.19	0.37	3.31	-0.80
GeneGroup1 Exclusive	GeneGroup2 Exclusive	0.00	-0.22	-0.31	0.05	-1.48
GeneGroup2 Exclusive	GeneGroup1 Exclusive	0.00	-0.16	-0.40	-0.34	-2.45
GeneGroup1 Exclusive	Overlap	0.00	-0.20	-0.82	nan	-0.22
GeneGroup2 Exclusive	Overlap	0.03	7.39	1.56	45.37	64.11
Overlap	Exclusives	0.01	1.60	7.60	32.69	7.27

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