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)
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145	3.37e-01	3.93e-01	1.23e-01	2.71e-01
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list	1.27e-01	1.65e-01	9.26e-02	1.24e-01
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	5.30e-01	5.65e-01	2.59e-01	3.35e-01
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list Exclusive	3.09e-01	4.16e-01	1.77e-01	2.26e-01
JimRay_list Exclusive	Overlap	3.96e-02	1.98e-02	3.96e-02	1.98e-02
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	Overlap	1.98e-02	1.98e-02	3.96e-02	1.98e-02
Overlap	Exclusives	1.46e-01	7.29e-02	5.85e-01	4.05e-02



Evaluating how well JimRay_list genes are linked to sigmaNIGADS_AD_R4_z2_9_EA_145 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)
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145	0.53	1.38	1.35	1.47	1.05
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list	0.64	1.36	1.65	1.71	1.59
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	0.53	0.94	1.17	1.05	1.26
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list Exclusive	0.61	1.01	1.16	1.66	1.71
JimRay_list Exclusive	Overlap	0.99	1.69	2.04	2.09	1.63
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	Overlap	1.00	1.64	1.60	1.87	1.62
Overlap	Exclusives	0.57	2.14	2.71	2.46	2.84

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)
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145	0.01	3.45	2.55	2.51	2.94
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list	0.01	16.31	11.53	7.44	11.23
JimRay_list Exclusive	sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	0.01	2.41	1.97	2.88	1.51
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	JimRay_list Exclusive	0.00	6.52	14.26	12.96	4.70
JimRay_list Exclusive	Overlap	0.00	6.27	7.73	2.74	9.41
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	Overlap	0.01	5.24	21.82	3.09	12.13
Overlap	Exclusives	0.01	5.44	4.80	5.70	4.65

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	 
JimRay_list Exclusive	13	13	
sigmaNIGADS_AD_R4_z2_9_EA_145 Exclusive	144	142	EDDM13;CHURC1-FNTB
Overlap	1	1