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)
Common2MethodGenes-q0-01 Exclusive	Familial	6.09e-09	1.54e-08	1.63e-12	7.78e-15
Familial Exclusive	Common2MethodGenes-q0-01	2.74e-04	1.98e-03	8.83e-07	1.03e-03
Common2MethodGenes-q0-01 Exclusive	Familial Exclusive	9.16e-06	8.46e-06	4.50e-09	2.54e-12
Familial Exclusive	Common2MethodGenes-q0-01 Exclusive	2.15e-02	5.31e-02	1.58e-04	1.81e-02
Common2MethodGenes-q0-01 Exclusive	Overlap	2.10e-05	3.02e-05	2.10e-05	2.40e-05
Familial Exclusive	Overlap	2.10e-05	2.10e-05	2.10e-05	2.10e-05
Overlap	Exclusives	2.49e-10	1.78e-09	9.91e-15	3.05e-14



Evaluating how well Common2MethodGenes-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)
Common2MethodGenes-q0-01 Exclusive	Familial	0.94	2.46	6.92	2.45	8.80
Familial Exclusive	Common2MethodGenes-q0-01	0.69	1.99	1.81	1.45	5.10
Common2MethodGenes-q0-01 Exclusive	Familial Exclusive	0.92	2.37	5.25	2.39	7.23
Familial Exclusive	Common2MethodGenes-q0-01 Exclusive	0.66	2.14	1.52	1.22	3.61
Common2MethodGenes-q0-01 Exclusive	Overlap	1.00	2.16	4.13	2.42	3.72
Familial Exclusive	Overlap	1.00	2.35	2.98	2.49	3.69
Overlap	Exclusives	0.76	1.54	3.91	1.87	7.39

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)
Common2MethodGenes-q0-01 Exclusive	Familial	0.05	9.56	68.11	24.55	65.73
Familial Exclusive	Common2MethodGenes-q0-01	0.10	62.78	127.85	80.16	197.63
Common2MethodGenes-q0-01 Exclusive	Familial Exclusive	0.03	5.34	46.30	16.45	40.16
Familial Exclusive	Common2MethodGenes-q0-01 Exclusive	0.04	64.01	87.41	52.41	78.24
Common2MethodGenes-q0-01 Exclusive	Overlap	0.03	23.35	29.50	42.03	17.03
Familial Exclusive	Overlap	0.20	34.30	269.20	400.45	367.29
Overlap	Exclusives	0.06	10.87	67.72	32.17	97.69

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	 
Common2MethodGenes-q0-01 Exclusive	48	47	
Familial Exclusive	26	26	
Overlap	5	5