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)
20 40 Exclusive	GeneGroup2	9.31e-01	5.63e-01	1.00e+00	2.36e-01
GeneGroup2 Exclusive	20 40	1.10e-01	6.17e-01	3.51e-01	1.73e-01
20 40 Exclusive	GeneGroup2 Exclusive	9.46e-01	8.12e-01	9.92e-01	3.07e-01
GeneGroup2 Exclusive	20 40 Exclusive	7.90e-02	5.26e-01	2.96e-01	2.49e-01
20 40 Exclusive	Overlap	1.98e-01	1.98e-02	1.78e-01	9.90e-02
GeneGroup2 Exclusive	Overlap	1.98e-02	1.98e-02	1.98e-02	1.98e-02
Overlap	Exclusives	9.72e-02	1.16e-03	1.17e-27	4.96e-04



Evaluating how well 20 40 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)
20 40 Exclusive	GeneGroup2	0.60	-0.29	-1.16	-0.20	1.70
GeneGroup2 Exclusive	20 40	0.54	0.39	0.52	0.58	1.25
20 40 Exclusive	GeneGroup2 Exclusive	0.58	-0.21	-0.80	-0.38	1.52
GeneGroup2 Exclusive	20 40 Exclusive	0.54	0.19	0.64	0.62	0.90
20 40 Exclusive	Overlap	0.98	1.05	-21735068258714.50	0.99	1.65
GeneGroup2 Exclusive	Overlap	1.00	1.18	inf	1.88	1.60
Overlap	Exclusives	0.62	inf	3.64	2.07	4.11

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)
20 40 Exclusive	GeneGroup2	0.00	-0.38	-1.23	-0.39	0.55
GeneGroup2 Exclusive	20 40	0.00	-0.21	-0.16	0.43	0.63
20 40 Exclusive	GeneGroup2 Exclusive	0.00	-0.34	-0.82	-0.38	0.17
GeneGroup2 Exclusive	20 40 Exclusive	0.00	-0.62	-0.22	-0.18	0.02
20 40 Exclusive	Overlap	0.00	1.60	-inf	1.29	1.32
GeneGroup2 Exclusive	Overlap	0.02	31.08	inf	84.69	99.22
Overlap	Exclusives	0.01	inf	12.69	6.94	11.83

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	 
20 40 Exclusive	74	73	CHD2
GeneGroup2 Exclusive	24	24	
Overlap	1	1