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)
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic	3.11e-03	4.61e-03	2.97e-04	6.30e-09
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1	7.07e-04	3.22e-04	5.09e-08	1.43e-05
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic Exclusive	2.72e-02	2.70e-02	5.29e-04	5.32e-08
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1 Exclusive	1.70e-03	4.72e-04	8.08e-08	7.30e-05
vep_2method_RareCon_AC1 Exclusive	Overlap	1.91e-02	1.15e-02	1.35e-02	2.32e-02
MI-Pathogenic Exclusive	Overlap	2.55e-02	9.05e-02	1.22e-02	1.73e-02
Overlap	Exclusives	4.43e-04	3.59e-04	3.36e-35	1.67e-13



Evaluating how well vep_2method_RareCon_AC1 genes are linked to MI-Pathogenic 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)
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic	0.80	2.67	3.97	1.98	6.07
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1	0.63	3.23	3.71	3.01	4.76
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic Exclusive	0.79	2.02	3.37	1.99	5.90
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1 Exclusive	0.62	2.93	3.45	2.56	4.74
vep_2method_RareCon_AC1 Exclusive	Overlap	0.96	1.71	2.69	1.60	2.49
MI-Pathogenic Exclusive	Overlap	0.97	1.30	2.21	1.98	2.08
Overlap	Exclusives	0.68	2.79	5.30	2.27	6.81

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)
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic	0.01	4.32	7.71	2.75	15.03
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1	0.01	3.14	4.58	4.68	8.09
vep_2method_RareCon_AC1 Exclusive	MI-Pathogenic Exclusive	0.01	2.12	7.18	1.35	13.10
MI-Pathogenic Exclusive	vep_2method_RareCon_AC1 Exclusive	0.01	2.78	3.84	3.88	5.73
vep_2method_RareCon_AC1 Exclusive	Overlap	0.00	2.43	10.21	2.81	3.28
MI-Pathogenic Exclusive	Overlap	0.00	2.43	12.41	12.71	3.79
Overlap	Exclusives	0.02	9.09	10.33	4.51	14.55

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	 
vep_2method_RareCon_AC1 Exclusive	124	123	PRAMEF11
MI-Pathogenic Exclusive	37	37	
Overlap	2	2