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)
GWAS Catalog Exclusive	Consensus_DefaultClustering	4.42e-03	1.36e-01	3.39e-15	5.57e-13
Consensus_DefaultClustering Exclusive	GWAS Catalog	5.92e-13	1.85e-01	7.29e-19	2.56e-06
GWAS Catalog Exclusive	Consensus_DefaultClustering Exclusive	2.77e-03	8.37e-01	1.65e-11	6.88e-12
Consensus_DefaultClustering Exclusive	GWAS Catalog Exclusive	3.89e-13	1.12e-01	3.14e-17	1.71e-05
GWAS Catalog Exclusive	Overlap	1.47e-07	8.72e-07	9.91e-10	4.01e-09
Consensus_DefaultClustering Exclusive	Overlap	1.83e-01	1.51e-01	1.25e-04	2.74e-03
Overlap	Exclusives	5.10e-29	2.94e-28	2.06e-53	2.71e-55



Evaluating how well GWAS Catalog genes are linked to Consensus_DefaultClustering 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)
GWAS Catalog Exclusive	Consensus_DefaultClustering	0.62	-0.46	0.48	1.26	10.04
Consensus_DefaultClustering Exclusive	GWAS Catalog	0.58	-1.08	-1.26	1.04	6.35
GWAS Catalog Exclusive	Consensus_DefaultClustering Exclusive	0.61	-1.46	-0.56	0.52	7.99
Consensus_DefaultClustering Exclusive	GWAS Catalog Exclusive	0.57	-1.42	-1.50	0.60	5.95
GWAS Catalog Exclusive	Overlap	0.81	6.84	4.85	5.85	6.09
Consensus_DefaultClustering Exclusive	Overlap	0.70	2.99	2.35	3.51	3.67
Overlap	Exclusives	0.68	7.91	14.15	6.86	18.32

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)
GWAS Catalog Exclusive	Consensus_DefaultClustering	0.06	5.00	12.12	6.43	29.21
Consensus_DefaultClustering Exclusive	GWAS Catalog	0.04	-1.45	-0.23	1.27	6.90
GWAS Catalog Exclusive	Consensus_DefaultClustering Exclusive	0.04	-0.83	0.93	1.39	11.80
Consensus_DefaultClustering Exclusive	GWAS Catalog Exclusive	0.04	-1.84	-1.00	0.54	6.10
GWAS Catalog Exclusive	Overlap	0.19	386.90	296.79	546.12	340.06
Consensus_DefaultClustering Exclusive	Overlap	0.01	6.15	11.52	10.22	1.07
Overlap	Exclusives	0.16	32.60	69.23	33.56	73.54

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	 
GWAS Catalog Exclusive	523	520	C5orf67;IG2BP2;INAFM2
Consensus_DefaultClustering Exclusive	444	435	MRE11 (MRE11A);TRMO (C9orf156);ARMT1 (C6orf211);PLPP5 (PPAPDC1B);ADA2 (CECR1);ADGRE1 (EMR1);KIF1BP (KIAA1279);PLPP4 (PPAPDC1A);SEM1 (SHFM1)
Overlap	25	25