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)
A positive Exclusive	B positive	7.56e-03	3.11e-02	5.17e-10	2.33e-07
B positive Exclusive	A positive	1.09e-02	3.66e-04	1.63e-06	6.11e-06
A positive Exclusive	B positive Exclusive	1.85e-03	8.84e-03	1.47e-09	2.06e-07
B positive Exclusive	A positive Exclusive	7.81e-02	1.44e-02	1.06e-03	3.56e-03
A positive Exclusive	Overlap	8.33e-01	8.87e-01	1.69e-01	2.21e-01
B positive Exclusive	Overlap	1.66e-01	2.49e-02	2.52e-03	2.45e-03
Overlap	Exclusives	2.13e-05	8.90e-05	7.97e-11	1.53e-11



Evaluating how well A positive genes are linked to B positive 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)
A positive Exclusive	B positive	0.72	1.56	2.31	0.88	5.32
B positive Exclusive	A positive	0.76	2.77	2.47	2.67	3.39
A positive Exclusive	B positive Exclusive	0.74	1.67	2.39	1.15	5.73
B positive Exclusive	A positive Exclusive	0.80	1.36	1.69	1.72	2.41
A positive Exclusive	Overlap	0.61	0.34	0.22	0.00	1.27
B positive Exclusive	Overlap	0.74	2.07	2.23	1.91	1.95
Overlap	Exclusives	0.78	3.12	4.06	2.52	6.21

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)
A positive Exclusive	B positive	0.01	0.97	1.84	0.58	4.37
B positive Exclusive	A positive	0.01	11.47	19.96	0.49	10.73
A positive Exclusive	B positive Exclusive	0.00	1.04	1.75	0.94	3.56
B positive Exclusive	A positive Exclusive	0.00	0.00	1.63	1.88	0.57
A positive Exclusive	Overlap	0.00	-0.13	-0.13	-0.13	0.31
B positive Exclusive	Overlap	0.01	13.27	38.99	33.19	32.71
Overlap	Exclusives	0.01	4.28	5.31	4.06	6.40

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	 
A positive Exclusive	6	6	
B positive Exclusive	47	45	NLGN4Y;USP9Y
Overlap	8	8