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)
AC1med Exclusive	GS2	1.11e-02	7.65e-03	1.03e-03	1.53e-03
GS2 Exclusive	AC1med	1.55e-09	4.73e-07	2.86e-14	1.40e-10
AC1med Exclusive	GS2 Exclusive	7.88e-02	8.14e-02	7.88e-02	7.88e-02
GS2 Exclusive	AC1med Exclusive	2.28e-07	3.07e-05	1.06e-10	5.62e-08
AC1med Exclusive	Overlap	2.13e-02	3.47e-02	3.26e-03	5.69e-03
GS2 Exclusive	Overlap	1.31e-03	8.91e-03	2.09e-08	1.24e-04
Overlap	Exclusives	2.41e-02	2.31e-02	4.89e-04	9.91e-04



Evaluating how well AC1med 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)
AC1med Exclusive	GS2	0.68	1.38	1.88	1.69	3.08
GS2 Exclusive	AC1med	0.72	6.43	6.78	3.30	6.88
AC1med Exclusive	GS2 Exclusive	0.75	0.42	1.48	0.59	1.70
GS2 Exclusive	AC1med Exclusive	0.70	6.36	5.61	3.32	5.10
AC1med Exclusive	Overlap	0.68	1.73	1.63	1.73	2.81
GS2 Exclusive	Overlap	0.77	4.28	3.83	2.89	4.34
Overlap	Exclusives	0.67	3.20	3.82	2.85	4.50

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)
AC1med Exclusive	GS2	0.02	36.65	56.15	55.11	54.47
GS2 Exclusive	AC1med	0.01	11.14	11.78	6.11	5.44
AC1med Exclusive	GS2 Exclusive	0.02	47.59	45.98	67.57	90.04
GS2 Exclusive	AC1med Exclusive	0.01	7.93	8.87	3.45	8.26
AC1med Exclusive	Overlap	0.01	32.90	40.11	32.86	35.56
GS2 Exclusive	Overlap	0.00	4.05	5.58	3.77	0.50
Overlap	Exclusives	0.02	28.76	30.98	23.85	5.47

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	 
AC1med Exclusive	55	54	CASC16
GS2 Exclusive	5	3	WNT3 ;LOC100131289
Overlap	24	24