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)
MIGen Exclusive	Nelson	1.31e-01	5.15e-03	9.87e-01	4.93e-06
Nelson Exclusive	MIGen	1.07e-02	2.25e-02	2.30e-04	6.42e-02
MIGen Exclusive	Nelson Exclusive	1.96e-01	7.91e-03	9.93e-01	1.44e-05
Nelson Exclusive	MIGen Exclusive	1.11e-01	2.68e-01	1.42e-02	8.20e-01
MIGen Exclusive	Overlap	2.36e-01	8.58e-02	4.98e-01	1.38e-01
Nelson Exclusive	Overlap	8.15e-05	3.60e-04	4.88e-05	1.23e-04
Overlap	Exclusives	1.58e-08	2.51e-10	1.07e-08	5.41e-12



Evaluating how well MIGen genes are linked to Nelson 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)
MIGen Exclusive	Nelson	0.60	1.74	3.81	1.42	6.55
Nelson Exclusive	MIGen	0.56	5.13	3.45	3.21	1.96
MIGen Exclusive	Nelson Exclusive	0.59	1.61	3.34	1.30	5.60
Nelson Exclusive	MIGen Exclusive	0.51	3.38	1.78	1.51	0.20
MIGen Exclusive	Overlap	0.66	1.59	1.61	1.36	2.26
Nelson Exclusive	Overlap	0.90	5.77	5.65	5.06	4.35
Overlap	Exclusives	0.63	3.50	6.77	3.47	9.31

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)
MIGen Exclusive	Nelson	0.02	1.59	3.92	1.02	3.90
Nelson Exclusive	MIGen	0.05	227.50	165.08	19.75	85.03
MIGen Exclusive	Nelson Exclusive	0.02	1.45	3.35	0.88	2.60
Nelson Exclusive	MIGen Exclusive	0.00	4.78	1.93	-0.26	-0.14
MIGen Exclusive	Overlap	0.00	0.31	0.38	0.60	0.96
Nelson Exclusive	Overlap	0.37	1048.47	1387.91	1284.35	486.30
Overlap	Exclusives	0.07	30.30	45.71	29.79	49.65

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	 
MIGen Exclusive	69	69	
Nelson Exclusive	290	283	MGC34034;RPL23AP7;POM121L9P;CDKN2BAS;LPAL2;MIR3134;MIR3169
Overlap	10	10