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)
Sigma coding_control1 Exclusive	TIER1_GS	4.69e-09	2.37e-09	2.25e-09	1.61e-11
TIER1_GS Exclusive	Sigma coding_control1	1.65e-01	8.14e-02	4.33e-03	3.42e-02
Sigma coding_control1 Exclusive	TIER1_GS Exclusive	1.13e-07	5.06e-08	3.81e-08	1.18e-09
TIER1_GS Exclusive	Sigma coding_control1 Exclusive	3.28e-01	1.08e-01	1.94e-02	1.30e-01
Sigma coding_control1 Exclusive	Overlap	4.62e-02	7.96e-02	4.62e-02	2.16e-03
TIER1_GS Exclusive	Overlap	1.74e-06	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	8.42e-04	2.03e-04	3.42e-13	1.49e-04



Evaluating how well Sigma coding_control1 genes are linked to TIER1_GS 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)
Sigma coding_control1 Exclusive	TIER1_GS	0.86	4.42	6.21	4.32	6.90
TIER1_GS Exclusive	Sigma coding_control1	0.56	2.58	2.31	2.93	2.87
Sigma coding_control1 Exclusive	TIER1_GS Exclusive	0.85	4.16	6.84	4.44	7.52
TIER1_GS Exclusive	Sigma coding_control1 Exclusive	0.55	2.14	2.00	2.26	1.86
Sigma coding_control1 Exclusive	Overlap	0.96	2.05	2.42	2.55	3.07
TIER1_GS Exclusive	Overlap	1.00	3.03	2.81	2.65	2.70
Overlap	Exclusives	0.60	4.59	4.77	3.34	4.21

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)
Sigma coding_control1 Exclusive	TIER1_GS	0.03	61.80	78.50	40.45	9.19
TIER1_GS Exclusive	Sigma coding_control1	0.02	16.06	5.59	21.90	18.62
Sigma coding_control1 Exclusive	TIER1_GS Exclusive	0.03	34.76	71.64	49.08	75.59
TIER1_GS Exclusive	Sigma coding_control1 Exclusive	0.02	7.66	4.23	6.24	5.69
Sigma coding_control1 Exclusive	Overlap	0.00	9.37	15.80	10.57	11.49
TIER1_GS Exclusive	Overlap	0.04	59.89	163.98	190.97	154.32
Overlap	Exclusives	0.04	27.86	21.70	29.06	30.10

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	 
Sigma coding_control1 Exclusive	151	145	CHURC1-FNTB;TNFSF12-TNFSF13;AC011195.2;AC093155.3;AC099850.2;RTEL1-TNFRSF6B
TIER1_GS Exclusive	28	27	MS4A
Overlap	3	3