Finding type 2 diabetes causal single nucleotide polymorphism combinations and functional modules from genome-wide association data

Kang, Chiyong; Yu, Hyeji; Yi, Gwan-Su

doi:10.1186/1472-6947-13-S1-S3

BMC Medical Informatics and Decision Making

Table 6 Selected pathways from expanded GSEA with a p-value < 0.05 in the WTCCC T2D dataset

From: Finding type 2 diabetes causal single nucleotide polymorphism combinations and functional modules from genome-wide association data

Database	Pathway	Size	p-value	FDR
PANTHER	WNT signaling pathway	130	0.001	0.056
KEGG	Calcium signaling pathway	105	0.002	0.073
KEGG	Pathways in cancer	193	0.002	0.081
KEGG	Focal adhesion	132	0.004	0.090
KEGG	Neuroactive ligand-receptor interaction	127	0.01	0.153
KEGG	MAPK signaling pathway	146	0.012	0.168
KEGG	Cell adhesion molecules (CAMs)	61	0.016	0.208
NCI-Nature	Regulation of RhoA activity	73	0.03	0.287
PANTHER	Huntington disease	58	0.03	0.277
Reactome	Signalling by NGF	107	0.03	0.359
KEGG	Non-small cell lung cancer	38	0.031	0.303
KEGG	Natural killer cell mediated cytotoxicity	56	0.035	0.232
PANTHER	Muscarinic acetylcholine receptor 1 and 3 signaling pathway	30	0.035	0.325
Reactome	Integrin cell surface interactions	57	0.036	0.330
KEGG	Axon guidance	74	0.036	0.419
Reactome	Cell Cycle, Mitotic	120	0.039	0.254
NCI-Nature	Notch signaling pathway	49	0.04	0.259
NCI-Nature	Signaling events mediated by focal adhesion kinase	42	0.041	0.260
NCI-Nature	EGF receptor (ErbB1) signaling pathway	94	0.043	0.379
Reactome	Gene Expression	146	0.043	0.379
KEGG	ErbB signaling pathway	55	0.043	0.379
NCI-Nature	Neurotrophic factor-mediated Trk receptor signaling	67	0.044	0.384
PANTHER	Beta1 adrenergic receptor signaling pathway	24	0.044	0.379
NCI-Nature	Hypoxic and oxygen homeostasis regulation of HIF-1-alpha	46	0.044	0.274
PANTHER	Heterotrimeric G-protein signaling pathway-Gq alpha and Go alpha mediated pathway	68	0.045	0.492
KEGG	Cytokine-cytokine receptor interaction	105	0.046	0.393
Reactome	Signaling in Immune system	118	0.046	0.399
Reactome	G-protein mediated events	27	0.047	0.346
NCI-Nature	Thromboxane A2 receptor signaling	40	0.047	0.346
PANTHER	FGF signaling pathway	60	0.048	0.403
KEGG	Adherens junction	52	0.048	0.406
KEGG	Leukocyte transendothelial migration	62	0.049	0.356
Reactome	Integration of energy metabolism	79	0.049	0.363
Reactome	Hemostasis	145	0.049	0.526

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ISSN: 1472-6947

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