Table 6.

Top five most significant type 2 diabetes gene set enrichment analysis (GSEA) results for six pathway databases

Database	Number of pathways queried	Bonferroni corrected p-value	Pathway	P-value for association with incident type 2 diabetes from GSEA	P-value for association with incident prostate cancer from GSEA
GO	1778	0.00003	Single-stranded DNA binding	0.0008	0.683
	1778	0.00003	Endocytic vesicle membrane	0.001	1
	1778	0.00003	Nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	0.003	0.465
	1778	0.00003	Intracellular signaling cascade	0.003	0.722
	1778	0.00003	Arachidonic acid secretion	0.004	0.250
Panther	527	0.0001	Vision	0.003	0.924
	527	0.0001	Annexin	0.003	1
	527	0.0001	Protein targeting and localization	0.007	0.754
	527	0.0001	Calmodulin related protein	0.007	0.407
	527	0.0001	Chemokine	0.008	0.593
Ingenuity	81	0.0006	Role of BRCA1 in DNA damage response	0.002	1
	81	0.0006	JAK stat signaling	0.020	1
	81	0.0006	Chemokine signaling	0.028	1
	81	0.0006	14-3-3 mediated signaling	0.057	0.576
	81	0.0006	FGF signaling	0.059	1
KEGG	186	0.0003	VEGF signaling pathway	0.002	0.608
	186	0.0003	Acute myeloid leukemia	0.006	1
	186	0.0003	Chemokine signaling pathway	0.006	0.425
	186	0.0003	FC Gamma R mediated phagocytosis	0.007	0.840
	186	0.0003	FC epsilon RI signaling pathway	0.010	0.273
BioCarta	214	0.0002	GH Pathway	0.0001*	0.439
	214	0.0002	Calcineurin pathway	0.001	1
	214	0.0002	CXCR4 pathway	0.004	0.250
	214	0.0002	BCR pathway	0.006	1
	214	0.0002	CCR3 pathway	0.007	0.246
Reactome	430	0.0001	Insulin synthesis and secretion	0.0003	0.923
	430	0.0001	Regulation of gene expression in Beta cells	0.002	0.873
	430	0.0001	Activation of the pre-replicative complex	0.002	0.569
	430	0.0001	Botulinum neurotoxicity	0.002	1
	430	0.0001	Neurotransmitter receptor binding and downstream transmission in the postsynaptic cell	0.003	0.111

^*Statistically significantly associated pathway after Bonferroni correction.