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)
108Female Exclusive	GWAS2	5.66e-02	4.52e-02	3.03e-02	5.27e-01
GWAS2 Exclusive	108Female	1.24e-04	2.60e-01	3.08e-02	1.12e-01
108Female Exclusive	GWAS2 Exclusive	1.14e-01	3.06e-02	2.83e-02	4.05e-01
GWAS2 Exclusive	108Female Exclusive	1.20e-04	1.48e-01	3.11e-02	9.27e-02
108Female Exclusive	Overlap	9.19e-01	2.84e-01	6.20e-01	5.27e-01
GWAS2 Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.15e-02
Overlap	Exclusives	1.23e-03	3.08e-04	8.13e-18	3.84e-04



Evaluating how well 108Female genes are linked to GWAS2 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)
108Female Exclusive	GWAS2	0.49	-1.30	-2.14	-1.73	-0.37
GWAS2 Exclusive	108Female	0.47	-1.41	-1.05	-1.44	-0.92
108Female Exclusive	GWAS2 Exclusive	0.48	-1.33	-2.21	-1.75	-0.33
GWAS2 Exclusive	108Female Exclusive	0.46	-1.56	-1.46	-1.59	-1.07
108Female Exclusive	Overlap	0.68	-0.03	-0.45	-0.41	0.83
GWAS2 Exclusive	Overlap	1.00	2.51	2.26	2.70	2.37
Overlap	Exclusives	0.60	4.39	3.71	2.74	4.26

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)
108Female Exclusive	GWAS2	0.00	-1.04	-1.57	-0.92	-0.24
GWAS2 Exclusive	108Female	0.01	1.14	1.65	1.39	0.32
108Female Exclusive	GWAS2 Exclusive	0.00	-1.01	-1.51	-1.15	-0.64
GWAS2 Exclusive	108Female Exclusive	0.00	-1.14	-1.47	-1.55	-0.71
108Female Exclusive	Overlap	0.00	-0.46	-1.12	-0.67	-0.13
GWAS2 Exclusive	Overlap	0.07	160.54	195.65	217.49	108.77
Overlap	Exclusives	0.03	14.39	29.30	27.71	25.49

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	 
108Female Exclusive	106	104	RFPL2;RAB6D
GWAS2 Exclusive	37	36	HLA
Overlap	2	2