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)
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic	1.21e-02	1.58e-01	1.04e-09	7.69e-17
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8	8.57e-08	3.20e-02	6.51e-37	1.15e-20
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic Exclusive	4.11e-01	7.86e-01	7.57e-08	2.86e-12
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8 Exclusive	5.58e-08	5.08e-02	8.39e-37	1.33e-19
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	Overlap	8.22e-06	4.15e-03	1.40e-09	1.90e-11
BRCA-somatic Exclusive	Overlap	1.78e-21	1.78e-14	1.78e-21	8.92e-18
Overlap	Exclusives	4.72e-36	3.94e-24	5.82e-110	5.89e-67



Evaluating how well MCL_Inflat2_1_ClustersAtLeast8 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)
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic	0.90	-0.93	2.58	1.73	7.55
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8	0.68	-0.74	3.25	1.45	12.94
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic Exclusive	0.88	-1.14	1.58	1.28	6.62
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8 Exclusive	0.67	-0.81	2.23	1.62	12.77
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	Overlap	0.99	1.09	4.12	2.03	4.99
BRCA-somatic Exclusive	Overlap	1.00	1.98	3.52	2.81	5.01
Overlap	Exclusives	0.79	6.29	15.29	3.12	19.35

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)
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic	0.03	-2.83	10.81	0.14	45.33
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8	0.04	-0.50	5.95	4.56	21.22
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	BRCA-somatic Exclusive	0.01	-2.06	0.20	-0.72	7.55
BRCA-somatic Exclusive	MCL_Inflat2_1_ClustersAtLeast8 Exclusive	0.04	-0.72	2.69	3.76	13.58
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	Overlap	0.05	-0.42	71.34	1.76	139.33
BRCA-somatic Exclusive	Overlap	0.04	1.09	53.29	52.40	37.59
Overlap	Exclusives	0.10	12.57	47.72	14.12	76.84

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	 
MCL_Inflat2_1_ClustersAtLeast8 Exclusive	395	394	
BRCA-somatic Exclusive	28	28	
Overlap	9	9