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)
AC3Avg Exclusive	GS3	9.45e-04	6.44e-02	6.82e-04	3.96e-01
GS3 Exclusive	AC3Avg	6.47e-02	2.34e-01	2.10e-05	4.77e-11
AC3Avg Exclusive	GS3 Exclusive	5.83e-04	6.60e-02	2.43e-03	5.41e-01
GS3 Exclusive	AC3Avg Exclusive	6.33e-02	1.79e-01	9.06e-05	2.82e-10
AC3Avg Exclusive	Overlap	1.15e-02	1.57e-02	1.15e-02	1.49e-02
GS3 Exclusive	Overlap	3.31e-01	3.21e-01	4.83e-02	7.39e-02
Overlap	Exclusives	2.45e-01	2.05e-01	9.74e-12	1.75e-17



Evaluating how well AC3Avg genes are linked to GS3 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)
AC3Avg Exclusive	GS3	0.54	-2.57	-2.31	-1.32	1.43
GS3 Exclusive	AC3Avg	0.68	-1.43	0.15	0.66	7.38
AC3Avg Exclusive	GS3 Exclusive	0.53	-2.71	-3.18	-1.61	0.84
GS3 Exclusive	AC3Avg Exclusive	0.68	-1.27	-0.05	0.40	6.86
AC3Avg Exclusive	Overlap	0.98	1.69	1.84	2.59	2.29
GS3 Exclusive	Overlap	0.81	0.96	0.94	1.22	1.41
Overlap	Exclusives	0.69	0.50	3.31	0.90	10.92

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)
AC3Avg Exclusive	GS3	0.01	0.71	-0.22	1.52	1.58
GS3 Exclusive	AC3Avg	0.01	-1.60	-1.05	0.52	3.65
AC3Avg Exclusive	GS3 Exclusive	0.01	0.08	-0.71	0.96	1.08
GS3 Exclusive	AC3Avg Exclusive	0.01	-1.58	-1.25	0.46	5.95
AC3Avg Exclusive	Overlap	0.00	3.08	3.60	11.04	0.47
GS3 Exclusive	Overlap	0.00	-0.10	-0.09	0.60	-0.09
Overlap	Exclusives	0.03	3.81	10.51	3.63	27.23

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	 
AC3Avg Exclusive	152	147	SPI-2;TFDP2;MC159L;CRMA;ORF71
GS3 Exclusive	77	76	CASC16
Overlap	2	2