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)
WaveAF0001 Exclusive	BRCA-rare-q001	2.46e-06	1.40e-04	6.71e-50	2.13e-35
BRCA-rare-q001 Exclusive	WaveAF0001	9.95e-05	4.98e-06	1.89e-46	6.47e-44
WaveAF0001 Exclusive	BRCA-rare-q001 Exclusive	3.08e-05	1.34e-03	4.16e-37	5.41e-24
BRCA-rare-q001 Exclusive	WaveAF0001 Exclusive	1.20e-04	5.12e-05	1.35e-37	1.89e-32
WaveAF0001 Exclusive	Overlap	7.55e-02	6.31e-03	5.68e-15	1.38e-12
BRCA-rare-q001 Exclusive	Overlap	3.26e-01	2.22e-02	1.21e-12	1.96e-13
Overlap	Exclusives	1.24e-08	1.19e-03	7.21e-54	1.59e-39



Evaluating how well WaveAF0001 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)
WaveAF0001 Exclusive	BRCA-rare-q001	0.85	4.03	4.76	5.92	12.96
BRCA-rare-q001 Exclusive	WaveAF0001	0.90	2.62	6.75	6.01	17.15
WaveAF0001 Exclusive	BRCA-rare-q001 Exclusive	0.83	4.16	4.16	5.05	11.26
BRCA-rare-q001 Exclusive	WaveAF0001 Exclusive	0.88	2.66	5.86	5.26	13.78
WaveAF0001 Exclusive	Overlap	0.94	0.71	2.82	4.06	7.07
BRCA-rare-q001 Exclusive	Overlap	0.94	0.82	3.67	4.44	7.16
Overlap	Exclusives	0.81	2.01	3.75	4.98	14.29

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)
WaveAF0001 Exclusive	BRCA-rare-q001	0.06	2.07	8.87	22.17	70.37
BRCA-rare-q001 Exclusive	WaveAF0001	0.08	0.45	16.69	23.16	69.92
WaveAF0001 Exclusive	BRCA-rare-q001 Exclusive	0.04	3.50	5.61	17.63	62.82
BRCA-rare-q001 Exclusive	WaveAF0001 Exclusive	0.06	1.39	13.58	21.35	94.90
WaveAF0001 Exclusive	Overlap	0.03	-0.40	6.93	20.71	6.74
BRCA-rare-q001 Exclusive	Overlap	0.02	-0.98	5.97	15.83	51.21
Overlap	Exclusives	0.06	1.45	6.14	19.77	46.90

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	 
WaveAF0001 Exclusive	100	100	
BRCA-rare-q001 Exclusive	96	96	
Overlap	23	23