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)
brain Exclusive	ctd	4.50e-04	1.88e-01	1.15e-12	7.51e-10
ctd Exclusive	brain	7.49e-02	1.75e-02	3.99e-06	2.64e-09
brain Exclusive	ctd Exclusive	1.66e-04	1.33e-01	3.00e-12	1.38e-09
ctd Exclusive	brain Exclusive	1.75e-01	4.83e-02	2.56e-06	2.43e-09
brain Exclusive	Overlap	2.65e-01	4.00e-01	1.12e-01	1.95e-01
ctd Exclusive	Overlap	9.92e-02	9.92e-02	9.92e-02	9.92e-02
Overlap	Exclusives	4.06e-21	1.86e-16	3.96e-47	6.69e-39



Evaluating how well brain 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)
brain Exclusive	ctd	0.74	0.87	1.96	1.78	7.89
ctd Exclusive	brain	0.80	-1.44	2.87	1.47	6.49
brain Exclusive	ctd Exclusive	0.74	1.15	2.08	1.65	7.32
ctd Exclusive	brain Exclusive	0.80	-1.98	2.68	1.90	7.02
brain Exclusive	Overlap	0.90	0.45	0.32	0.69	1.36
ctd Exclusive	Overlap	1.00	1.24	1.59	1.16	1.71
Overlap	Exclusives	0.86	2.23	9.48	2.21	15.34

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)
brain Exclusive	ctd	0.01	0.63	1.04	3.69	5.76
ctd Exclusive	brain	0.01	-1.45	6.64	5.50	3.07
brain Exclusive	ctd Exclusive	0.01	0.87	1.22	3.07	13.09
ctd Exclusive	brain Exclusive	0.01	-2.02	2.62	3.72	6.43
brain Exclusive	Overlap	0.00	-0.18	-0.60	0.04	-0.03
ctd Exclusive	Overlap	0.07	59.42	321.41	106.49	139.31
Overlap	Exclusives	0.03	3.02	22.29	2.53	20.90

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	 
brain Exclusive	36	36	
ctd Exclusive	102	88	MIR100;SNAR-I;MIR505;ATP7;MIR375;CTR1C;MIR124A-3;MIR766;CTR1B;MIR296;MIR708;MIR146A;MIR3622B;MIR4467
Overlap	1	1