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)
EA_STRING Exclusive	Nelson_validated	1.89e-05	5.63e-04	9.18e-05	4.33e-07
Nelson_validated Exclusive	EA_STRING	6.65e-04	3.88e-04	4.71e-11	1.50e-04
EA_STRING Exclusive	Nelson_validated Exclusive	1.11e-04	1.71e-03	3.79e-04	1.57e-06
Nelson_validated Exclusive	EA_STRING Exclusive	2.10e-03	3.74e-04	7.38e-11	2.15e-04
EA_STRING Exclusive	Overlap	1.22e-02	3.87e-02	1.22e-02	1.57e-02
Nelson_validated Exclusive	Overlap	1.15e-02	1.15e-02	1.15e-02	1.15e-02
Overlap	Exclusives	2.32e-17	2.04e-20	3.57e-81	1.74e-21



Evaluating how well EA_STRING genes are linked to Nelson_validated 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)
EA_STRING Exclusive	Nelson_validated	0.70	2.13	4.00	2.73	6.38
Nelson_validated Exclusive	EA_STRING	0.55	4.39	5.27	2.85	4.62
EA_STRING Exclusive	Nelson_validated Exclusive	0.69	2.02	3.53	2.09	5.51
Nelson_validated Exclusive	EA_STRING Exclusive	0.55	3.35	4.64	2.64	3.97
EA_STRING Exclusive	Overlap	0.97	1.96	1.82	3.07	2.47
Nelson_validated Exclusive	Overlap	1.00	3.17	2.49	2.63	2.48
Overlap	Exclusives	0.62	2.22	11.58	2.94	11.37

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)
EA_STRING Exclusive	Nelson_validated	0.01	4.05	6.28	5.53	11.64
Nelson_validated Exclusive	EA_STRING	0.04	5.97	6.23	3.23	5.10
EA_STRING Exclusive	Nelson_validated Exclusive	0.01	3.43	6.01	4.02	3.17
Nelson_validated Exclusive	EA_STRING Exclusive	0.04	5.00	5.08	3.24	3.89
EA_STRING Exclusive	Overlap	0.00	1.90	2.56	4.18	5.74
Nelson_validated Exclusive	Overlap	0.06	185.40	136.40	396.55	170.92
Overlap	Exclusives	0.06	5.00	20.58	4.63	21.20

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	 
EA_STRING Exclusive	615	609	PAGR1;ZNF816-ZNF321P;UGT2A1;PTGES3L-AARSD1;GIMAP1-GIMAP5;MRPL23
Nelson_validated Exclusive	84	79	ZNF259;CDKN2BAS;C6orf105;POM121L9P;LPAL2
Overlap	2	2