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

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 strateg...

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Detalles Bibliográficos
Autores principales: Buil, Alfonso, Martinez-Perez, Angel, Perera-Lluna, Alexandre, Rib, Leonor, Caminal, Pere, Soria, Jose Manuel
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2009
Materias:
Proceedings
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2795904/
https://www.ncbi.nlm.nih.gov/pubmed/20017997
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author Buil, Alfonso
Martinez-Perez, Angel
Perera-Lluna, Alexandre
Rib, Leonor
Caminal, Pere
Soria, Jose Manuel
author_facet Buil, Alfonso
Martinez-Perez, Angel
Perera-Lluna, Alexandre
Rib, Leonor
Caminal, Pere
Soria, Jose Manuel
author_sort Buil, Alfonso
collection PubMed
description 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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spelling pubmed-27959042009-12-18 A new gene-based association test for genome-wide association studies Buil, Alfonso Martinez-Perez, Angel Perera-Lluna, Alexandre Rib, Leonor Caminal, Pere Soria, Jose Manuel BMC Proc Proceedings 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. BioMed Central 2009-12-15 /pmc/articles/PMC2795904/ /pubmed/20017997 Text en Copyright ©2009 Buil et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Proceedings
Buil, Alfonso
Martinez-Perez, Angel
Perera-Lluna, Alexandre
Rib, Leonor
Caminal, Pere
Soria, Jose Manuel
A new gene-based association test for genome-wide association studies
title A new gene-based association test for genome-wide association studies
title_full A new gene-based association test for genome-wide association studies
title_fullStr A new gene-based association test for genome-wide association studies
title_full_unstemmed A new gene-based association test for genome-wide association studies
title_short A new gene-based association test for genome-wide association studies
title_sort new gene-based association test for genome-wide association studies
topic Proceedings
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2795904/
https://www.ncbi.nlm.nih.gov/pubmed/20017997
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