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)
Combined_1e4 Exclusive	GS_11	3.67e-01	7.80e-03	4.86e-06	1.27e-06
GS_11 Exclusive	Combined_1e4	4.30e-03	4.57e-02	1.27e-12	4.29e-09
Combined_1e4 Exclusive	GS_11 Exclusive	2.71e-01	6.68e-02	2.37e-04	5.93e-05
GS_11 Exclusive	Combined_1e4 Exclusive	1.91e-02	6.75e-02	7.60e-12	6.55e-09
Combined_1e4 Exclusive	Overlap	9.71e-02	1.36e-01	7.72e-04	1.42e-02
GS_11 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	3.98e-01	3.12e-01	2.11e-08	2.04e-09



Evaluating how well Combined_1e4 genes are linked to GS_11 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)
Combined_1e4 Exclusive	GS_11	0.87	0.82	2.73	2.12	4.34
GS_11 Exclusive	Combined_1e4	0.64	1.73	2.59	1.77	7.73
Combined_1e4 Exclusive	GS_11 Exclusive	0.90	1.24	2.53	2.17	3.97
GS_11 Exclusive	Combined_1e4 Exclusive	0.63	1.33	2.07	1.33	6.88
Combined_1e4 Exclusive	Overlap	0.79	-0.29	1.48	1.05	1.86
GS_11 Exclusive	Overlap	1.00	4.25	3.40	2.89	3.14
Overlap	Exclusives	0.64	1.69	1.68	1.20	6.95

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)
Combined_1e4 Exclusive	GS_11	0.00	0.13	1.65	2.83	3.71
GS_11 Exclusive	Combined_1e4	0.02	3.99	6.49	7.61	16.02
Combined_1e4 Exclusive	GS_11 Exclusive	0.00	0.70	1.86	3.77	6.21
GS_11 Exclusive	Combined_1e4 Exclusive	0.02	1.36	2.18	2.60	7.25
Combined_1e4 Exclusive	Overlap	0.00	-0.57	1.09	0.52	-0.10
GS_11 Exclusive	Overlap	0.24	2289.24	432.53	1081.90	251.89
Overlap	Exclusives	0.02	4.61	3.37	2.90	11.20

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	 
Combined_1e4 Exclusive	213	213	
GS_11 Exclusive	8	8	
Overlap	3	3