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)
AC3 Exclusive	GS3	1.03e-03	3.47e-01	3.14e-02	1.98e-02
GS3 Exclusive	AC3	8.88e-03	2.77e-01	5.51e-03	6.76e-03
AC3 Exclusive	GS3 Exclusive	1.15e-03	6.48e-01	1.93e-02	9.34e-03
GS3 Exclusive	AC3 Exclusive	1.41e-02	2.88e-01	3.17e-03	7.72e-03
AC3 Exclusive	Overlap	9.92e-02	1.25e-01	9.92e-02	1.18e-01
GS3 Exclusive	Overlap	8.11e-01	5.30e-01	7.73e-01	3.35e-01
Overlap	Exclusives	1.29e-13	2.05e-17	2.39e-06	1.06e-17



Evaluating how well AC3 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)
AC3 Exclusive	GS3	0.60	0.07	1.65	0.79	3.06
GS3 Exclusive	AC3	0.55	1.59	0.57	0.31	2.06
AC3 Exclusive	GS3 Exclusive	0.59	-0.02	1.25	0.58	3.22
GS3 Exclusive	AC3 Exclusive	0.55	1.19	0.72	0.31	1.82
AC3 Exclusive	Overlap	0.98	1.96	1.84	2.10	1.64
GS3 Exclusive	Overlap	0.24	-0.37	-0.72	-0.60	-0.95
Overlap	Exclusives	0.69	1.82	9.08	1.67	10.66

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)
AC3 Exclusive	GS3	0.01	-0.55	1.43	0.03	0.65
GS3 Exclusive	AC3	0.01	1.55	0.47	0.14	0.60
AC3 Exclusive	GS3 Exclusive	0.01	-0.68	1.02	-0.06	1.86
GS3 Exclusive	AC3 Exclusive	0.01	1.21	0.78	0.02	0.49
AC3 Exclusive	Overlap	0.00	5.98	3.38	5.59	3.00
GS3 Exclusive	Overlap	0.00	-0.17	-0.58	-0.21	-0.31
Overlap	Exclusives	0.04	2.87	30.35	1.72	20.83

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	 
AC3 Exclusive	152	151	UGT2A1
GS3 Exclusive	78	77	CASC16
Overlap	1	1