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	GSgwas	1.36e-02	2.21e-01	1.89e-05	5.02e-08
GSgwas	GeneGroup1	4.22e-01	5.05e-01	2.93e-02	1.32e-01



Evaluating how well GeneGroup1 genes are linked to GSgwas 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	GSgwas	0.67	2.11	2.17	1.70	6.72
GSgwas	GeneGroup1	0.60	0.07	0.88	0.75	1.66

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	GSgwas	0.01	2.04	2.00	2.05	6.59
GSgwas	GeneGroup1	0.00	-0.19	2.37	1.57	0.10

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	28	28	
GSgwas	157	134	SCL22A3;SAT2B-AS1;ANRIL;LINC00675;45358;SNHG15;c11orf53;HLA class I; PIGU;LINC00673;METRLN;LINC00603;SnoU13;ZMIZ1-AS1;LOC146513;CDKN2B-AS1;TERC;RTELI;POUF5F1B; MYNN;HLA class II;COLCA1;LINC00917