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)
WaveAF001 Exclusive	BRCA-rare-q001	9.40e-06	8.46e-04	5.30e-47	1.52e-36
BRCA-rare-q001 Exclusive	WaveAF001	1.33e-05	1.66e-04	2.71e-45	5.52e-39
WaveAF001 Exclusive	BRCA-rare-q001 Exclusive	1.10e-05	2.61e-03	4.89e-34	3.20e-25
BRCA-rare-q001 Exclusive	WaveAF001 Exclusive	1.90e-04	1.12e-03	5.80e-35	7.46e-29
WaveAF001 Exclusive	Overlap	8.18e-02	2.31e-02	7.65e-18	4.40e-15
BRCA-rare-q001 Exclusive	Overlap	4.86e-02	2.00e-02	1.21e-12	9.44e-13
Overlap	Exclusives	4.80e-06	9.70e-04	4.95e-49	6.90e-39



Evaluating how well WaveAF001 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)
WaveAF001 Exclusive	BRCA-rare-q001	0.86	4.56	4.72	4.87	13.53
BRCA-rare-q001 Exclusive	WaveAF001	0.87	3.92	7.31	6.14	14.68
WaveAF001 Exclusive	BRCA-rare-q001 Exclusive	0.84	4.07	3.61	4.69	11.35
BRCA-rare-q001 Exclusive	WaveAF001 Exclusive	0.86	3.66	6.70	6.83	15.84
WaveAF001 Exclusive	Overlap	0.90	4.29	3.45	4.37	7.31
BRCA-rare-q001 Exclusive	Overlap	0.90	2.72	3.57	3.93	7.81
Overlap	Exclusives	0.81	1.83	4.95	5.60	14.86

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)
WaveAF001 Exclusive	BRCA-rare-q001	0.06	3.02	9.46	23.29	31.17
BRCA-rare-q001 Exclusive	WaveAF001	0.08	2.75	7.25	25.34	100.21
WaveAF001 Exclusive	BRCA-rare-q001 Exclusive	0.04	3.89	6.80	20.43	55.71
BRCA-rare-q001 Exclusive	WaveAF001 Exclusive	0.04	0.92	4.94	25.02	79.51
WaveAF001 Exclusive	Overlap	0.03	0.02	7.18	20.74	54.17
BRCA-rare-q001 Exclusive	Overlap	0.06	2.51	16.35	43.37	87.80
Overlap	Exclusives	0.05	2.11	7.73	19.92	46.32

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	 
WaveAF001 Exclusive	102	102	
BRCA-rare-q001 Exclusive	88	88	
Overlap	31	31