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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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BMC Medical Informatics and Decision Making

ISSN: 1472-6947

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