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)
ext Exclusive	ctd	3.63e-03	3.80e-01	2.72e-24	6.92e-15
ctd Exclusive	ext	3.65e-05	4.60e-04	2.14e-24	9.41e-21
ext Exclusive	ctd Exclusive	3.66e-03	4.39e-01	5.43e-21	3.09e-13
ctd Exclusive	ext Exclusive	2.10e-05	2.07e-03	4.88e-22	2.50e-18
ext Exclusive	Overlap	4.01e-02	5.60e-01	3.30e-05	3.27e-04
ctd Exclusive	Overlap	2.10e-05	9.45e-05	2.10e-05	3.95e-05
Overlap	Exclusives	3.31e-10	3.15e-16	6.40e-61	6.91e-53



Evaluating how well ext genes are linked to ctd 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)
ext Exclusive	ctd	0.78	4.14	2.05	3.03	9.42
ctd Exclusive	ext	0.75	-5.65	3.85	1.73	10.78
ext Exclusive	ctd Exclusive	0.77	3.89	1.94	2.52	8.52
ctd Exclusive	ext Exclusive	0.74	-6.78	3.02	1.31	10.59
ext Exclusive	Overlap	0.95	4.46	0.75	2.34	3.51
ctd Exclusive	Overlap	0.99	2.61	5.15	2.89	3.77
Overlap	Exclusives	0.82	6.48	9.90	2.60	17.18

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)
ext Exclusive	ctd	0.02	5.30	0.57	8.22	31.14
ctd Exclusive	ext	0.03	-0.06	13.15	11.27	27.31
ext Exclusive	ctd Exclusive	0.02	4.90	0.52	6.27	30.24
ctd Exclusive	ext Exclusive	0.02	-2.81	5.53	4.62	13.03
ext Exclusive	Overlap	0.01	12.56	-0.61	11.94	20.59
ctd Exclusive	Overlap	0.15	173.53	458.42	420.33	264.06
Overlap	Exclusives	0.07	17.87	51.59	12.10	83.85

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	 
ext Exclusive	150	149	BRD2
ctd Exclusive	98	84	MIR146A;MIR3622B;MIR708;MIR296;MIR505;MIR375;SNAR-I;CTR1C;MIR4467;MIR124A-3;MIR100;CTR1B;MIR766;ATP7
Overlap	5	5