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	3.95e-02	1.77e-03	2.56e-47	3.65e-28
BRCA-All-GS Exclusive	Wavelet-Rare	6.70e-09	1.10e-04	3.04e-50	6.89e-53
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	5.08e-02	4.52e-03	2.94e-42	8.37e-22
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	3.18e-06	3.49e-04	3.86e-44	4.87e-42
Wavelet-Rare Exclusive	Overlap	2.84e-02	2.56e-02	1.42e-13	4.91e-13
BRCA-All-GS Exclusive	Overlap	7.91e-11	2.83e-08	2.52e-15	7.33e-15
Overlap	Exclusives	9.36e-26	1.52e-16	1.00e-93	1.89e-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	1.13	5.03	3.84	13.76
BRCA-All-GS Exclusive	Wavelet-Rare	0.82	-0.09	4.27	3.65	17.24
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	0.71	0.74	3.81	4.03	12.02
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	0.80	-0.94	4.10	3.46	14.72
Wavelet-Rare Exclusive	Overlap	0.95	1.86	2.88	2.42	6.90
BRCA-All-GS Exclusive	Overlap	0.98	3.18	4.73	3.69	6.20
Overlap	Exclusives	0.76	4.05	10.18	6.23	20.60

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	-1.63	14.80	8.40	51.28
BRCA-All-GS Exclusive	Wavelet-Rare	0.10	4.21	19.63	14.00	119.32
Wavelet-Rare Exclusive	BRCA-All-GS Exclusive	0.04	-0.42	10.07	8.81	38.70
BRCA-All-GS Exclusive	Wavelet-Rare Exclusive	0.04	-1.20	3.23	4.51	39.34
Wavelet-Rare Exclusive	Overlap	0.03	-1.62	6.04	4.58	95.03
BRCA-All-GS Exclusive	Overlap	0.44	12.01	193.93	96.55	735.99
Overlap	Exclusives	0.10	5.15	27.24	23.83	76.03

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