Causal inference for the covariance between breeding values under identity disequilibrium
Fil: Cantet, Rodolfo Juan Carlos. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina.
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| Formato: | Artículo publishedVersion |
| Lenguaje: | Inglés |
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2022
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| Acceso en línea: | http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2022cantet1 |
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snrd:2022cantet1 |
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dspace |
| institution |
Universidad de Buenos Aires |
| institution_str |
I-28 |
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R-140 |
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FAUBA Digital - Facultad de Agronomía (UBA) |
| language |
Inglés |
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eng |
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COVARIANZA GENETICA GENETICA BIOMETRIA PARAMETROS GENETICOS METODOS DE MEJORAMIENTO GENETICO MEJORA GENETICA |
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COVARIANZA GENETICA GENETICA BIOMETRIA PARAMETROS GENETICOS METODOS DE MEJORAMIENTO GENETICO MEJORA GENETICA Cantet, Rodolfo Juan Carlos Angarita Barajas, Belcy Karine Forneris, Natalia Soledad Munilla Leguizamón, Sebastián Causal inference for the covariance between breeding values under identity disequilibrium |
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COVARIANZA GENETICA GENETICA BIOMETRIA PARAMETROS GENETICOS METODOS DE MEJORAMIENTO GENETICO MEJORA GENETICA |
| description |
Fil: Cantet, Rodolfo Juan Carlos. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. |
| format |
Artículo Artículo publishedVersion publishedVersion |
| author |
Cantet, Rodolfo Juan Carlos Angarita Barajas, Belcy Karine Forneris, Natalia Soledad Munilla Leguizamón, Sebastián |
| author_facet |
Cantet, Rodolfo Juan Carlos Angarita Barajas, Belcy Karine Forneris, Natalia Soledad Munilla Leguizamón, Sebastián |
| author_sort |
Cantet, Rodolfo Juan Carlos |
| title |
Causal inference for the covariance between breeding values under identity disequilibrium |
| title_short |
Causal inference for the covariance between breeding values under identity disequilibrium |
| title_full |
Causal inference for the covariance between breeding values under identity disequilibrium |
| title_fullStr |
Causal inference for the covariance between breeding values under identity disequilibrium |
| title_full_unstemmed |
Causal inference for the covariance between breeding values under identity disequilibrium |
| title_sort |
causal inference for the covariance between breeding values under identity disequilibrium |
| publishDate |
2022 |
| url |
http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2022cantet1 |
| work_keys_str_mv |
AT cantetrodolfojuancarlos causalinferenceforthecovariancebetweenbreedingvaluesunderidentitydisequilibrium AT angaritabarajasbelcykarine causalinferenceforthecovariancebetweenbreedingvaluesunderidentitydisequilibrium AT fornerisnataliasoledad causalinferenceforthecovariancebetweenbreedingvaluesunderidentitydisequilibrium AT munillaleguizamonsebastian causalinferenceforthecovariancebetweenbreedingvaluesunderidentitydisequilibrium |
| _version_ |
1862330819254681600 |
| spelling |
snrd:2022cantet12026-03-26T10:27:42Z Cantet, Rodolfo Juan Carlos Angarita Barajas, Belcy Karine Forneris, Natalia Soledad Munilla Leguizamón, Sebastián 2022 Fil: Cantet, Rodolfo Juan Carlos. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Cantet, Rodolfo Juan Carlos. Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Cantet, Rodolfo Juan Carlos. CONICET - Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Angarita Barajas, Belcy Karine. Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Angarita Barajas, Belcy Karine. CONICET - Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Forneris, Natalia Soledad. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Forneris, Natalia Soledad. Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Forneris, Natalia Soledad. CONICET - Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Munilla Leguizamón, Sebastián. Universidad de Buenos Aires. Facultad de Agronomía. Departamento de Producción Animal. Buenos Aires, Argentina. Fil: Munilla Leguizamón, Sebastián. Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Fil: Munilla Leguizamón, Sebastián. CONICET - Universidad de Buenos Aires. Facultad de Ciencias Veterinarias. Instituto de Investigaciones en Producción Animal (INPA). Buenos Aires, Argentina. Background: The covariance matrix of breeding values is at the heart of prediction methods. Prediction of breeding values can be formulated using either an “observed” or a theoretical covariance matrix, and a major argument for choosing one or the other is the reduction of the computational burden for inverting such a matrix. In this regard, covariance matrices that are derived from Markov causal models possess properties that deliver sparse inverses. Results: By using causal Markov models, we express the breeding value of an individual as a linear regression on ancestral breeding values, plus a residual term, which we call residual breeding value (RBV). The latter is a noise term that accounts for the uncertainty in prediction due to lack of fit of the linear regression. A notable property of these models is the parental Markov condition, through which the multivariate distribution of breeding values is uniquely determined by the distribution of the mutually independent RBV. Animal breeders have long been relying on a causal Markov model, while using the additive relationship matrix as the covariance matrix structure of breeding values, which is calculated assuming gametic equilibrium. However, additional covariances among breeding values arise due to identity disequilibrium, which is defined as the difference between the covariance matrix under the multi - loci probability of identity - by - descent (∑) and its expectation under gametic phase equilibrium, i.e., A. The disequilibrium term ∑ − A is considered in the model for predicting breeding values called the “ancestral regression” (AR), a causal Markov model. Here, we introduce the “ancestral regression to parents” (PAR) causal Markov model, which reduces the computational burden of the AR approach. By taking advantage of the conditional independence property of the PAR Markov model, we derive covariances between the breeding values of grandparents and grand - offspring and between parents and offspring. In addition, we obtain analytical expressions for the covariance between collateral relatives under the PAR model, as well as for the inbreeding coefficient. Conclusions: We introduced the causal PAR Markov model that captures identity disequilibrium in the covariances among breeding values and produces a sparse inverse covariance matrix to build and solve a set of mixed model equations. grafs., tbls. application/pdf 10.1186/s12711-022-00750-6 1297-9686 (en línea) 0999-193X (impreso) http://ri.agro.uba.ar/greenstone3/library/collection/arti/document/2022cantet1 eng info:eu-repo/semantics/openAccess openAccess openAccess http://ri.agro.uba.ar/greenstone3/library/page/biblioteca#section4 Genetics Selection Evolution Vol.54 art. 64 http://www.biomedcentral.com/ COVARIANZA GENETICA GENETICA BIOMETRIA PARAMETROS GENETICOS METODOS DE MEJORAMIENTO GENETICO MEJORA GENETICA Causal inference for the covariance between breeding values under identity disequilibrium info:ar-repo/semantics/artículo info:eu-repo/semantics/article publishedVersion info:eu-repo/semantics/publishedVersion |