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)
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic	1.33e-02	5.81e-02	6.22e-11	1.44e-24
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus	4.32e-02	7.61e-02	1.45e-15	1.08e-06
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic Exclusive	7.24e-02	7.91e-02	1.74e-10	2.37e-21
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus Exclusive	5.20e-02	1.05e-01	3.18e-15	3.04e-06
RareAndCommon_2methodConsensus Exclusive	Overlap	5.00e-03	7.54e-03	4.36e-07	8.71e-06
BRCA-somatic Exclusive	Overlap	4.36e-07	5.79e-04	4.36e-07	4.36e-06
Overlap	Exclusives	2.13e-08	7.14e-06	1.41e-35	1.27e-10



Evaluating how well RareAndCommon_2methodConsensus genes are linked to BRCA-somatic 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)
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic	0.93	1.89	3.43	2.83	11.35
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus	0.62	0.17	2.20	2.17	4.81
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic Exclusive	0.92	1.40	2.97	2.70	9.05
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus Exclusive	0.61	0.27	1.63	2.29	4.72
RareAndCommon_2methodConsensus Exclusive	Overlap	1.00	1.48	2.45	1.62	3.21
BRCA-somatic Exclusive	Overlap	0.99	1.72	3.40	2.15	2.98
Overlap	Exclusives	0.66	2.53	2.82	1.59	8.53

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)
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic	0.05	1.77	10.45	7.78	94.92
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus	0.01	0.38	3.26	3.21	7.15
RareAndCommon_2methodConsensus Exclusive	BRCA-somatic Exclusive	0.03	0.59	4.87	5.90	28.87
BRCA-somatic Exclusive	RareAndCommon_2methodConsensus Exclusive	0.01	0.63	1.53	3.71	6.63
RareAndCommon_2methodConsensus Exclusive	Overlap	0.03	9.21	27.12	24.83	103.23
BRCA-somatic Exclusive	Overlap	0.01	2.08	13.85	35.13	50.19
Overlap	Exclusives	0.02	5.65	10.30	5.58	13.93

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	 
RareAndCommon_2methodConsensus Exclusive	145	144	PRAMEF11
BRCA-somatic Exclusive	34	34	
Overlap	3	3