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)
WaveAF01 Exclusive	BRCA-rare-q001	1.06e-03	4.21e-04	3.12e-48	7.17e-38
BRCA-rare-q001 Exclusive	WaveAF01	7.58e-03	1.34e-03	7.07e-43	4.22e-37
WaveAF01 Exclusive	BRCA-rare-q001 Exclusive	1.40e-02	5.10e-03	3.58e-35	5.77e-27
BRCA-rare-q001 Exclusive	WaveAF01 Exclusive	1.70e-02	1.59e-03	8.83e-34	9.85e-28
WaveAF01 Exclusive	Overlap	1.36e-02	7.33e-04	2.77e-16	2.90e-14
BRCA-rare-q001 Exclusive	Overlap	1.56e-01	1.72e-01	9.40e-13	8.08e-12
Overlap	Exclusives	6.49e-07	4.18e-04	1.13e-58	6.71e-41



Evaluating how well WaveAF01 genes are linked to BRCA-rare-q001 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)
WaveAF01 Exclusive	BRCA-rare-q001	0.85	3.62	4.97	4.97	11.98
BRCA-rare-q001 Exclusive	WaveAF01	0.83	1.97	4.92	5.89	17.01
WaveAF01 Exclusive	BRCA-rare-q001 Exclusive	0.83	3.56	3.72	5.46	10.53
BRCA-rare-q001 Exclusive	WaveAF01 Exclusive	0.81	2.41	4.20	5.36	12.64
WaveAF01 Exclusive	Overlap	0.92	2.66	2.69	3.95	7.96
BRCA-rare-q001 Exclusive	Overlap	0.91	1.20	2.63	4.54	7.31
Overlap	Exclusives	0.80	3.37	5.34	5.58	15.47

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)
WaveAF01 Exclusive	BRCA-rare-q001	0.06	3.21	6.99	20.48	47.77
BRCA-rare-q001 Exclusive	WaveAF01	0.04	0.94	6.72	14.94	41.39
WaveAF01 Exclusive	BRCA-rare-q001 Exclusive	0.04	2.38	5.04	17.86	51.52
BRCA-rare-q001 Exclusive	WaveAF01 Exclusive	0.03	1.04	5.11	14.45	29.41
WaveAF01 Exclusive	Overlap	0.04	2.93	-4.63	25.20	85.39
BRCA-rare-q001 Exclusive	Overlap	0.02	0.26	5.47	18.61	23.13
Overlap	Exclusives	0.07	5.38	12.38	28.61	73.43

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	 
WaveAF01 Exclusive	115	115	
BRCA-rare-q001 Exclusive	92	92	
Overlap	27	27