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. 2009 Dec 15;3 Suppl 7(Suppl 7):S130.
doi: 10.1186/1753-6561-3-s7-s130.

A new gene-based association test for genome-wide association studies

Alfonso Buil  1 , Angel Martinez-Perez, Alexandre Perera-Lluna, Leonor Rib, Pere Caminal, Jose Manuel Soria
Affiliations

A new gene-based association test for genome-wide association studies

Alfonso Buil et al. BMC Proc. .

Abstract

Genome-wide association studies are widely used today to discover genetic factors that modify the risk of complex diseases. Usually, these methods work in a SNP-by-SNP fashion. We present a gene-based test that can be applied in the context of genome-wide association studies. We compare both strategies, SNP-based and gene-based, in a sample of cases and controls for rheumatoid arthritis.We obtained different results using each strategy. The SNP-based test found the PTPN22 gene while the gene-based test found the PHF19-TRAF1-C5 region. That suggests that no single strategy performs better than another in all cases and that a certain underlying genetic architecture can be delineated more easily with one strategy rather than with another.

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