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)
dpp Exclusive	ctd	1.04e-02	4.11e-02	2.64e-19	9.19e-17
ctd Exclusive	dpp	1.28e-04	3.96e-02	1.86e-11	3.12e-09
dpp Exclusive	ctd Exclusive	5.84e-03	6.21e-02	1.52e-18	3.60e-16
ctd Exclusive	dpp Exclusive	2.09e-04	5.71e-02	3.10e-11	3.57e-09
dpp Exclusive	Overlap	1.41e-01	7.93e-01	1.41e-01	1.75e-01
ctd Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	1.22e-19	5.15e-08	9.17e-61	1.52e-36



Evaluating how well dpp 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)
dpp Exclusive	ctd	0.80	3.43	4.18	3.78	10.36
ctd Exclusive	dpp	0.70	-3.82	2.51	1.74	7.94
dpp Exclusive	ctd Exclusive	0.80	2.97	4.61	3.62	9.47
ctd Exclusive	dpp Exclusive	0.70	-4.81	2.91	1.75	6.76
dpp Exclusive	Overlap	0.85	-1.38	0.17	0.76	1.49
ctd Exclusive	Overlap	1.00	2.20	1.60	2.11	1.88
Overlap	Exclusives	0.79	2.56	8.25	2.82	13.46

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)
dpp Exclusive	ctd	0.02	2.22	2.53	8.91	38.84
ctd Exclusive	dpp	0.02	-0.42	7.49	9.18	13.18
dpp Exclusive	ctd Exclusive	0.02	2.09	2.51	8.56	8.83
ctd Exclusive	dpp Exclusive	0.02	-1.34	5.30	7.74	16.08
dpp Exclusive	Overlap	0.00	-0.69	-0.38	-0.07	0.85
ctd Exclusive	Overlap	0.07	473.66	934.96	770.91	598.00
Overlap	Exclusives	0.04	6.34	16.49	5.40	31.12

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	 
dpp Exclusive	127	126	BRD2
ctd Exclusive	102	88	MIR100;MIR296;MIR146A;MIR505;SNAR-I;ATP7;MIR3622B;MIR766;MIR708;MIR4467;MIR124A-3;MIR375;CTR1C;CTR1B
Overlap	1	1