Meta-analysis of genome-wide association from genomic prediction models

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Fil: Bernal Rubio, Yeni Liliana. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina.

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Autores principales: Bernal Rubio, Yeni Liliana, Gualdrón Duarte, José Luis, Bates, R. O., Ernst, Catherine W., Nonneman, D., Rohrer, G. A., King, A., Shackelford, S. D., Wheeler, T. L., Cantet, Rodolfo Juan Carlos, Steibel, Juan Pedro
Formato: Artículo publishedVersion
Lenguaje:Inglés
Publicado: 2015
Materias:
GBLUP
GENOME - WIDE ASSOCIATION STUDIES
MULTIPLE POPULATIONS
Acceso en línea:http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2016bernalrubio
Aporte de:
FAUBA Digital - Facultad de Agronomía (UBA) de Universidad de Buenos Aires
id snrd:2016bernalrubio
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spelling snrd:2016bernalrubio2021-09-09T12:34:54Z Bernal Rubio, Yeni Liliana Gualdrón Duarte, José Luis Bates, R. O. Ernst, Catherine W. Nonneman, D. Rohrer, G. A. King, A. Shackelford, S. D. Wheeler, T. L. Cantet, Rodolfo Juan Carlos Steibel, Juan Pedro 2015 Fil: Bernal Rubio, Yeni Liliana. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Gualdrón Duarte, José Luis. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Bates, R. O. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Ernst, Catherine W. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Nonneman, D. USDA/ARS, U.S. Meat Animal Research Center. Estados Unidos. Fil: Rohrer, G. A. USDA/ARS, U.S. Meat Animal Research Center. Clay Center, Estados Unidos. Fil: King, A. USDA/ARS, U.S. Meat Animal Research Center. Clay Center, Estados Unidos. Fil: Shackelford, S. D. USDA/ARS, U.S. Meat Animal Research Center. Clay Center, Estados Unidos. Fil: Wheeler, T. L. USDA/ARS, U.S. Meat Animal Research Center. Clay Center, Estados Unidos. Fil: Cantet, Rodolfo Juan Carlos. Michigan State University. Department of Animal Science. Estados Unidos. Fil: Steibel, Juan Pedro. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Genome-wide association (GWA) studies based on GBLUP models are a common practice in animal breeding. However, effect sizes of GWA tests are small, requiring larger sample sizes to enhance power of detection of rare variants. Because of difficulties in increasing sample size in animal populations, one alternative is to implement a meta-analysis (MA), combining information and results from independent GWA studies. Although this methodology has been used widely in human genetics, implementation in animal breeding has been limited. Thus, we present methods to implement a MA of GWA, describing the proper approach to compute weights derived from multiple genomic evaluations based on animal-centric GBLUP models. Application to real datasets shows that MA increases power of detection of associations in comparison with population-level GWA, allowing for population structure and heterogeneity of variance components across populations to be accounted for. Another advantage of MA is that it does not require access to genotype data that is required for a joint analysis. Scripts related to the implementation of this approach, which consider the strength of association as well as the sign, are distributed and thus account for heterogeneity in association phase between QTL and SNPs. Thus, MA of GWA is an attractive alternative to summarizing results from multiple genomic studies, avoiding restrictions with genotype data sharing, definition of fixed effects and different scales of measurement of evaluated traits. tbls., grafs. application/pdf 10.1111/age.12378 1365-2052 http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2016bernalrubio eng info:eu-repo/semantics/openAccess openAccess http://ri.agro.uba.ar/greenstone3/library/page/biblioteca#section4 Animal Genetics Vol.47, no.1 36–48 https://www.wiley.com GBLUP GENOME - WIDE ASSOCIATION STUDIES MULTIPLE POPULATIONS Meta-analysis of genome-wide association from genomic prediction models info:ar-repo/semantics/artículo info:eu-repo/semantics/article publishedVersion info:eu-repo/semantics/publishedVersion
institution Universidad de Buenos Aires
institution_str I-28
repository_str R-140
collection FAUBA Digital - Facultad de Agronomía (UBA)
language Inglés
orig_language_str_mv eng
topic GBLUP
GENOME - WIDE ASSOCIATION STUDIES
MULTIPLE POPULATIONS
spellingShingle GBLUP
GENOME - WIDE ASSOCIATION STUDIES
MULTIPLE POPULATIONS
Bernal Rubio, Yeni Liliana
Gualdrón Duarte, José Luis
Bates, R. O.
Ernst, Catherine W.
Nonneman, D.
Rohrer, G. A.
King, A.
Shackelford, S. D.
Wheeler, T. L.
Cantet, Rodolfo Juan Carlos
Steibel, Juan Pedro
Meta-analysis of genome-wide association from genomic prediction models
topic_facet GBLUP
GENOME - WIDE ASSOCIATION STUDIES
MULTIPLE POPULATIONS
description Fil: Bernal Rubio, Yeni Liliana. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina.
format Artículo
Artículo
publishedVersion
publishedVersion
author Bernal Rubio, Yeni Liliana
Gualdrón Duarte, José Luis
Bates, R. O.
Ernst, Catherine W.
Nonneman, D.
Rohrer, G. A.
King, A.
Shackelford, S. D.
Wheeler, T. L.
Cantet, Rodolfo Juan Carlos
Steibel, Juan Pedro
author_facet Bernal Rubio, Yeni Liliana
Gualdrón Duarte, José Luis
Bates, R. O.
Ernst, Catherine W.
Nonneman, D.
Rohrer, G. A.
King, A.
Shackelford, S. D.
Wheeler, T. L.
Cantet, Rodolfo Juan Carlos
Steibel, Juan Pedro
author_sort Bernal Rubio, Yeni Liliana
title Meta-analysis of genome-wide association from genomic prediction models
title_short Meta-analysis of genome-wide association from genomic prediction models
title_full Meta-analysis of genome-wide association from genomic prediction models
title_fullStr Meta-analysis of genome-wide association from genomic prediction models
title_full_unstemmed Meta-analysis of genome-wide association from genomic prediction models
title_sort meta-analysis of genome-wide association from genomic prediction models
publishDate 2015
url http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2016bernalrubio
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