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Large-scale association analysis of TNF/LTA gene region polymorphisms in type 2 diabetes

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Author(s): Boraska Vesna | Rayner Nigel | Groves Christopher | Frayling Timothy | Diakite Mahamadou | Rockett Kirk | Kwiatkowski Dominic | Day-Williams Aaron | McCarthy Mark | Zeggini Eleftheria

Journal: BMC Medical Genetics
ISSN 1471-2350

Volume: 11;
Issue: 1;
Start page: 69;
Date: 2010;
Original page

ABSTRACT
Abstract Background The TNF/LTA locus has been a long-standing T2D candidate gene. Several studies have examined association of TNF/LTA SNPs with T2D but the majority have been small-scale and produced no convincing evidence of association. The purpose of this study is to examine T2D association of tag SNPs in the TNF/LTA region capturing the majority of common variation in a large-scale sample set of UK/Irish origin. Methods This study comprised a case-control (1520 cases and 2570 control samples) and a family-based component (423 parent-offspring trios). Eleven tag SNPs (rs928815, rs909253, rs746868, rs1041981 (T60N), rs1800750, rs1800629 (G-308A), rs361525 (G-238A), rs3093662, rs3093664, rs3093665, and rs3093668) were selected across the TNF/LTA locus and genotyped using a fluorescence-based competitive allele specific assay. Quality control of the obtained genotypes was performed prior to single- and multi-point association analyses under the additive model. Results We did not find any consistent SNP associations with T2D in the case-control or family-based datasets. Conclusions The present study, designed to analyse a set of tag SNPs specifically selected to capture the majority of common variation in the TNF/LTA gene region, found no robust evidence for association with T2D. To investigate the presence of smaller effects of TNF/LTA gene variation with T2D, a large-scale meta-analysis will be required.
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