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)
GeneGroup1 Exclusive	GS	2.84e-02	2.46e-03	1.26e-37	1.36e-46
GS Exclusive	GeneGroup1	4.21e-03	6.63e-01	2.66e-12	1.60e-05
GeneGroup1 Exclusive	GS Exclusive	2.64e-02	3.28e-03	4.68e-37	4.05e-46
GS Exclusive	GeneGroup1 Exclusive	3.11e-03	6.38e-01	1.54e-11	1.35e-05
GeneGroup1 Exclusive	Overlap	2.38e-01	9.70e-01	1.98e-02	3.96e-02
GS Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	6.46e-12	7.78e-23	3.77e-194	6.42e-120



Evaluating how well GeneGroup1 genes are linked to GS 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)
GeneGroup1 Exclusive	GS	0.77	-1.29	2.54	1.91	16.78
GS Exclusive	GeneGroup1	0.71	-2.02	0.61	1.40	5.02
GeneGroup1 Exclusive	GS Exclusive	0.77	-1.32	2.35	2.17	18.34
GS Exclusive	GeneGroup1 Exclusive	0.70	-1.85	0.67	1.29	5.04
GeneGroup1 Exclusive	Overlap	0.98	0.17	0.36	1.51	1.62
GS Exclusive	Overlap	1.00	1.98	2.08	1.28	1.79
Overlap	Exclusives	0.86	1.97	13.43	2.15	22.85

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)
GeneGroup1 Exclusive	GS	0.05	-1.45	3.68	3.55	33.93
GS Exclusive	GeneGroup1	0.01	-0.27	0.39	1.46	10.50
GeneGroup1 Exclusive	GS Exclusive	0.05	-1.30	3.61	3.69	31.58
GS Exclusive	GeneGroup1 Exclusive	0.01	-2.10	-0.89	0.26	1.47
GeneGroup1 Exclusive	Overlap	0.00	-0.37	-0.49	3.63	5.29
GS Exclusive	Overlap	0.12	7.12	45.15	73.12	132.30
Overlap	Exclusives	0.08	4.61	25.84	2.63	64.63

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	 
GeneGroup1 Exclusive	50	47	NLGN4Y;CHD2;USP9Y
GS Exclusive	306	304	TERC;TOP 1.00
Overlap	1	1