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	GS2	1.87e-01	8.98e-01	2.02e-03	5.02e-02
GS2 Exclusive	AC3Avg	8.62e-01	2.05e-01	1.00e-06	7.28e-12
AC3Avg Exclusive	GS2 Exclusive	1.66e-01	8.43e-01	4.53e-03	1.66e-01
GS2 Exclusive	AC3Avg Exclusive	5.44e-01	2.71e-01	3.22e-07	9.82e-12
AC3Avg Exclusive	Overlap	9.92e-02	1.57e-01	9.92e-02	1.18e-01
GS2 Exclusive	Overlap	2.06e-01	1.49e-01	1.41e-01	1.66e-01
Overlap	Exclusives	1.14e-01	3.69e-02	1.74e-28	6.74e-20



Evaluating how well AC3Avg genes are linked to GS2 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	GS2	0.64	-0.43	-0.27	0.66	2.35
GS2 Exclusive	AC3Avg	0.70	-0.13	1.79	1.16	9.24
AC3Avg Exclusive	GS2 Exclusive	0.62	-0.57	-0.30	0.45	2.22
GS2 Exclusive	AC3Avg Exclusive	0.70	-0.34	1.69	1.23	9.47
AC3Avg Exclusive	Overlap	0.97	0.83	0.95	1.40	1.60
GS2 Exclusive	Overlap	0.93	1.30	1.29	1.48	1.26
Overlap	Exclusives	0.73	0.62	3.17	1.37	10.77

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	GS2	0.00	0.19	-0.38	0.96	1.67
GS2 Exclusive	AC3Avg	0.01	-0.41	1.44	1.66	9.22
AC3Avg Exclusive	GS2 Exclusive	0.00	0.06	-0.39	1.20	0.79
GS2 Exclusive	AC3Avg Exclusive	0.01	-0.47	0.96	1.89	6.49
AC3Avg Exclusive	Overlap	0.00	0.27	0.47	3.82	2.47
GS2 Exclusive	Overlap	0.00	0.63	0.45	0.80	0.03
Overlap	Exclusives	0.02	0.89	4.70	1.44	16.13

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	153	148	MC159L;SPI-2;ORF71;TFDP2;CRMA
GS2 Exclusive	28	26	LOC100131289;WNT3 
Overlap	1	1