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)
Wavelet-Rare Exclusive	BRCA-All-GS	2.85e-02	1.29e-03	3.95e-49	1.31e-27
BRCA-All-GS Exclusive	Wavelet-Rare	1.52e-08	6.17e-05	1.29e-49	1.12e-52
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	3.80e-02	5.02e-03	1.92e-43	4.23e-22
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	3.23e-06	3.83e-04	2.12e-45	1.00e-42
Wavelet-Rare Exclusive	Overlap	3.20e-02	2.66e-02	7.55e-14	6.67e-13
BRCA-All-GS Exclusive	Overlap	4.80e-11	4.12e-08	2.52e-15	5.47e-15
Overlap	Exclusives	2.75e-25	8.06e-16	3.83e-93	3.21e-62



Evaluating how well Wavelet-Rare genes are linked to BRCA-All-GS 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)
Wavelet-Rare Exclusive	BRCA-All-GS	0.73	1.09	4.35	4.43	14.21
BRCA-All-GS Exclusive	Wavelet-Rare	0.82	-0.09	4.32	4.07	15.73
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	0.71	0.89	4.16	4.28	11.75
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	0.80	-0.70	3.38	3.64	13.28
Wavelet-Rare Exclusive	Overlap	0.95	1.82	2.85	2.71	8.47
BRCA-All-GS Exclusive	Overlap	0.98	3.44	4.32	3.28	7.42
Overlap	Exclusives	0.76	3.39	9.66	5.29	19.31

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)
Wavelet-Rare Exclusive	BRCA-All-GS	0.06	-1.49	13.77	9.22	52.49
BRCA-All-GS Exclusive	Wavelet-Rare	0.10	4.36	18.46	15.17	109.59
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	0.04	-0.30	10.19	9.34	27.72
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	0.04	-0.90	2.69	5.36	40.54
Wavelet-Rare Exclusive	Overlap	0.03	-1.92	6.05	7.77	77.10
BRCA-All-GS Exclusive	Overlap	0.44	13.97	177.43	48.35	1064.63
Overlap	Exclusives	0.10	5.65	26.11	24.52	77.41

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	 
Wavelet-Rare Exclusive	201	200	CHD2
BRCA-All-GS Exclusive	241	241	
Overlap	21	21