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)
Rare_2methodConsensus Exclusive	GeneGroup2	3.50e-01	2.19e-01	2.48e-03	2.44e-13
GeneGroup2 Exclusive	Rare_2methodConsensus	8.24e-02	5.13e-01	1.07e-07	2.59e-02
Rare_2methodConsensus Exclusive	GeneGroup2 Exclusive	4.15e-01	6.95e-01	8.38e-03	2.65e-12
GeneGroup2 Exclusive	Rare_2methodConsensus Exclusive	8.18e-02	7.02e-01	2.86e-07	3.20e-02
Rare_2methodConsensus Exclusive	Overlap	2.28e-02	9.85e-05	5.42e-03	1.48e-03
GeneGroup2 Exclusive	Overlap	9.85e-05	2.07e-02	9.85e-05	5.91e-04
Overlap	Exclusives	3.83e-06	4.92e-05	1.30e-18	2.07e-10



Evaluating how well Rare_2methodConsensus genes are linked to GeneGroup2 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)
Rare_2methodConsensus Exclusive	GeneGroup2	0.87	1.23	1.53	1.80	7.65
GeneGroup2 Exclusive	Rare_2methodConsensus	0.58	-0.47	1.08	1.11	2.41
Rare_2methodConsensus Exclusive	GeneGroup2 Exclusive	0.86	1.35	1.63	1.44	7.82
GeneGroup2 Exclusive	Rare_2methodConsensus Exclusive	0.57	-0.50	0.66	0.97	2.24
Rare_2methodConsensus Exclusive	Overlap	0.99	1.57	1.96	1.47	2.41
GeneGroup2 Exclusive	Overlap	1.00	1.34	2.23	1.90	2.34
Overlap	Exclusives	0.67	2.50	2.58	1.80	6.74

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)
Rare_2methodConsensus Exclusive	GeneGroup2	0.01	0.38	1.13	1.56	18.79
GeneGroup2 Exclusive	Rare_2methodConsensus	0.01	-0.64	1.18	2.42	2.57
Rare_2methodConsensus Exclusive	GeneGroup2 Exclusive	0.01	0.15	-0.68	1.09	10.02
GeneGroup2 Exclusive	Rare_2methodConsensus Exclusive	0.01	-0.52	0.16	0.77	1.35
Rare_2methodConsensus Exclusive	Overlap	0.00	3.79	27.49	5.88	10.89
GeneGroup2 Exclusive	Overlap	0.01	0.97	7.44	37.41	8.00
Overlap	Exclusives	0.02	3.94	7.74	3.79	13.99

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	 
Rare_2methodConsensus Exclusive	91	90	PRAMEF11
GeneGroup2 Exclusive	35	35	
Overlap	2	2