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)
AllVar2MethodGenes-q0-01 Exclusive	Familial	1.26e-08	9.06e-08	5.37e-12	3.24e-16
Familial Exclusive	AllVar2MethodGenes-q0-01	1.34e-04	1.52e-03	3.69e-08	2.58e-04
AllVar2MethodGenes-q0-01 Exclusive	Familial Exclusive	5.24e-05	8.19e-05	2.51e-07	4.00e-13
Familial Exclusive	AllVar2MethodGenes-q0-01 Exclusive	3.73e-03	5.58e-02	1.63e-05	3.83e-03
AllVar2MethodGenes-q0-01 Exclusive	Overlap	2.62e-06	3.43e-06	2.62e-06	2.87e-06
Familial Exclusive	Overlap	2.62e-06	2.62e-06	2.62e-06	2.74e-06
Overlap	Exclusives	2.77e-10	1.36e-09	1.43e-14	6.13e-14



Evaluating how well AllVar2MethodGenes-q0-01 genes are linked to Familial 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)
AllVar2MethodGenes-q0-01 Exclusive	Familial	0.94	2.32	6.55	2.54	8.85
Familial Exclusive	AllVar2MethodGenes-q0-01	0.67	2.99	2.08	1.67	5.46
AllVar2MethodGenes-q0-01 Exclusive	Familial Exclusive	0.92	2.30	5.43	2.07	7.83
Familial Exclusive	AllVar2MethodGenes-q0-01 Exclusive	0.64	2.84	1.62	1.18	3.95
AllVar2MethodGenes-q0-01 Exclusive	Overlap	1.00	2.59	4.21	2.15	4.48
Familial Exclusive	Overlap	1.00	2.29	3.78	2.38	4.19
Overlap	Exclusives	0.73	2.02	4.70	2.14	9.33

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)
AllVar2MethodGenes-q0-01 Exclusive	Familial	0.06	10.79	67.80	21.95	106.88
Familial Exclusive	AllVar2MethodGenes-q0-01	0.08	28.16	111.77	65.88	147.25
AllVar2MethodGenes-q0-01 Exclusive	Familial Exclusive	0.04	5.06	50.46	14.51	107.78
Familial Exclusive	AllVar2MethodGenes-q0-01 Exclusive	0.04	40.07	53.54	39.23	55.33
AllVar2MethodGenes-q0-01 Exclusive	Overlap	0.05	49.58	26.19	65.58	41.26
Familial Exclusive	Overlap	0.19	24.90	306.68	193.27	445.85
Overlap	Exclusives	0.06	12.64	71.10	29.82	108.45

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	 
AllVar2MethodGenes-q0-01 Exclusive	71	70	
Familial Exclusive	25	25	
Overlap	6	6