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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
Fecha : |
21/02/2014 |
Actualizado : |
09/10/2019 |
Tipo de producción científica : |
Artículos en Revistas Indexadas Internacionales |
Autor : |
LEGARRA, A.; AGUILAR, I.; MISZTAL, I. |
Afiliación : |
A. LEGARRA, INRA, France; IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; I. MISZTAL, Department of Animal and Dairy Science, University of Georgia, US. |
Título : |
A relationship matrix including full pedigree and genomic information. |
Fecha de publicación : |
2009 |
Fuente / Imprenta : |
Journal of Dairy Science, 2009, 92 (9): 4656-4663. OPEN ACCESS. |
ISSN : |
0022-0302 |
DOI : |
10.3168/jds.2009-2061 |
Idioma : |
Inglés |
Notas : |
Article history: Received January 26, 2009. // Accepted April 28, 2009. |
Contenido : |
ABSTRACT.
Dense molecular markers are being used in genetic evaluation for parts of the population. This requires a two-step procedure where pseudo-data (for instance, daughter yield deviations) are computed from full records and pedigree data and later used for genomic evaluation. This results in bias and loss of information. One way to incorporate the genomic information into a full genetic evaluation is by modifying the numerator relationship matrix. A naive proposal is to substitute the relationships of genotyped animals with the genomic relationship matrix. However, this results in incoherencies because the genomic relationship matrix includes information on relationships among ancestors and descendants. In other words, using the pedigree-de- rived covariance between genotyped and ungenotyped individuals, with the pretense that genomic information does not exist, leads to inconsistencies. It is proposed to condition the genetic value of ungenotyped animals on the genetic value of genotyped animals via the selection index (e.g., pedigree information), and then use the genomic relationship matrix for the latter. This results in a joint distribution of genotyped and ungenotyped genetic values, with a pedigree-genomic relationship matrix H. In this matrix, genomic information is transmitted to the covariances among all ungenotyped individuals. The matrix is (semi)positive definite by construction, which is not the case for the naive approach. Numerical examples and alternative expressions are discussed. Matrix H is suitable for iteration on data algorithms that multiply a vector times a matrix, such as preconditioned conjugated gradients.
© American Dairy Science Association, 2009. MenosABSTRACT.
Dense molecular markers are being used in genetic evaluation for parts of the population. This requires a two-step procedure where pseudo-data (for instance, daughter yield deviations) are computed from full records and pedigree data and later used for genomic evaluation. This results in bias and loss of information. One way to incorporate the genomic information into a full genetic evaluation is by modifying the numerator relationship matrix. A naive proposal is to substitute the relationships of genotyped animals with the genomic relationship matrix. However, this results in incoherencies because the genomic relationship matrix includes information on relationships among ancestors and descendants. In other words, using the pedigree-de- rived covariance between genotyped and ungenotyped individuals, with the pretense that genomic information does not exist, leads to inconsistencies. It is proposed to condition the genetic value of ungenotyped animals on the genetic value of genotyped animals via the selection index (e.g., pedigree information), and then use the genomic relationship matrix for the latter. This results in a joint distribution of genotyped and ungenotyped genetic values, with a pedigree-genomic relationship matrix H. In this matrix, genomic information is transmitted to the covariances among all ungenotyped individuals. The matrix is (semi)positive definite by construction, which is not the case for the naive approach. Numerical examples and alternat... Presentar Todo |
Palabras claves : |
GENETIC EVALUATION; GENOMIC SELECTION; MIXED MODEL; RELATIONSHIP MATRIX. |
Thesagro : |
EVALUACIÓN GENÉTICA. |
Asunto categoría : |
-- |
URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/12192/1/1-s2.0-S0022030209707933-main.pdf
https://www.journalofdairyscience.org/article/S0022-0302(09)70793-3/pdf
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Marc : |
LEADER 02476naa a2200241 a 4500 001 1012837 005 2019-10-09 008 2009 bl uuuu u00u1 u #d 022 $a0022-0302 024 7 $a10.3168/jds.2009-2061$2DOI 100 1 $aLEGARRA, A. 245 $aA relationship matrix including full pedigree and genomic information.$h[electronic resource] 260 $c2009 500 $aArticle history: Received January 26, 2009. // Accepted April 28, 2009. 520 $aABSTRACT. Dense molecular markers are being used in genetic evaluation for parts of the population. This requires a two-step procedure where pseudo-data (for instance, daughter yield deviations) are computed from full records and pedigree data and later used for genomic evaluation. This results in bias and loss of information. One way to incorporate the genomic information into a full genetic evaluation is by modifying the numerator relationship matrix. A naive proposal is to substitute the relationships of genotyped animals with the genomic relationship matrix. However, this results in incoherencies because the genomic relationship matrix includes information on relationships among ancestors and descendants. In other words, using the pedigree-de- rived covariance between genotyped and ungenotyped individuals, with the pretense that genomic information does not exist, leads to inconsistencies. It is proposed to condition the genetic value of ungenotyped animals on the genetic value of genotyped animals via the selection index (e.g., pedigree information), and then use the genomic relationship matrix for the latter. This results in a joint distribution of genotyped and ungenotyped genetic values, with a pedigree-genomic relationship matrix H. In this matrix, genomic information is transmitted to the covariances among all ungenotyped individuals. The matrix is (semi)positive definite by construction, which is not the case for the naive approach. Numerical examples and alternative expressions are discussed. Matrix H is suitable for iteration on data algorithms that multiply a vector times a matrix, such as preconditioned conjugated gradients. © American Dairy Science Association, 2009. 650 $aEVALUACIÓN GENÉTICA 653 $aGENETIC EVALUATION 653 $aGENOMIC SELECTION 653 $aMIXED MODEL 653 $aRELATIONSHIP MATRIX 700 1 $aAGUILAR, I. 700 1 $aMISZTAL, I. 773 $tJournal of Dairy Science, 2009, 92 (9): 4656-4663. OPEN ACCESS.
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INIA Las Brujas (LB) |
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Registros recuperados : 218 | |
21. | | LEGARRA, A.; AGUILAR, I.; MISZTAL, I. Single step methods with a view towards poultry breeding. Volume Species Breeding: Poultry, 324. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.324. Acknowledgements: This work has been financed by X-Gen and GenSSeq actions from SelGen metaprogram (INRA).Tipo: Trabajos en Congresos/Conferencias |
Biblioteca(s): INIA Las Brujas. |
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25. | | LEGARRA, A.; AGUILAR, I.; COLLEAU, J.J. Short communication: Methods to compute genomic inbreeding for ungenotyped individuals. Journal of Dairy Science, April 2020, Volume 103, Issue 4, Pages 3363-3367. Doi: https://doi.org/10.3168/jds.2019-17750 Article history: Received October 15, 2019. / Accepted December 18, 2019.
Corresponding author: A. Legarra - email: andres.legarra@inra.fr
This study was partially funded by the INRA (Paris, France) SELGEN funding metaprogram (Project...Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : Internacional - -- |
Biblioteca(s): INIA Las Brujas. |
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29. | | PRAVIA, M.I.; NAVAJAS, E.; AGUILAR, I.; RAVAGNOLO, O. Alternative models to predict residual feed intake in Hereford breed and effects on their breeding values accuracy. [48] Part 6 - Challenges - resource allocation and genetics of feed intake and efficiency. In: Proceedings of the World Congress on Genetics Applied to Livestock Production (WCGALP), 12., Rotterdam, the Netherlands, 3-8 July 2022. doi: https://doi.org/10.3920/978-90-8686-940-4_48 240-243. Article history: Published online: February 9, 2023 -- Corresponding author: María Isabel Pravia, email: mpravia@inia.org.uyTipo: Trabajos en Congresos/Conferencias |
Biblioteca(s): INIA Las Brujas. |
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30. | | MASUDA, Y.; AGUILAR, I.; TSURUTA, S.; MISZTAL, I. Acceleration of computations in AI REML for single-step GBLUP models. Volume Methods and Tools: Statistical methods - linear and nonlinear models (Posters), 703. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.703.Tipo: Trabajos en Congresos/Conferencias |
Biblioteca(s): INIA Las Brujas. |
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31. | | FRANCO, J.; FEED, O.; AGUILAR, I.; GIMENO, D.; NAVAJAS, E. ¿Afectamos la calidad del producto al cruzar? Calidad de la carne: pH y terneza. ln: INIA Tacuarembó. Seminario de actualización técnica, 23 de agosto, 2002. Cruzamientos en bovinos para carnes: Resultados FPTA 083. Tacuarembó, (Uruguay): INIA; Facultad de Agronomía, 2002. p. 63-67 (INIA Serie Actividades de Difusión ; 295) INIA Tacuarembó; Universidad de la República (Uruguay). Facultad de Agronomía; Universidad de la República (Uruguay). Facultad de Química; Frigorífico Tacuarembó; Universidad de la República (Uruguay). Facultad de Veterinaria; Caja...Biblioteca(s): INIA Tacuarembó. |
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36. | | BERMANN, M.; MISZTAL, I.; LOURENCO, D.; AGUILAR, I.; LEGARRA, A. Definition of reliabilities for models with metafounders. [289] Part 17 - Challenges - improving genomic prediction. In: Proceedings of the World Congress on Genetics Applied to Livestock Production (WCGALP), 12., Rotterdam, the Netherlands, 3-8 July 2022. doi: https://doi.org/10.3920/978-90-8686-940-4_289 1217-1220. Article history: Published online: February 9, 2023. -- Corresponding author: A. Legarra, email: andres.legarra@inrae.fr -- Acknowledgment: This work received financing from European Unions' Horizon 2020 Research & Innovation Programme,...Tipo: Trabajos en Congresos/Conferencias |
Biblioteca(s): INIA Las Brujas. |
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38. | | FRANCO, J.; FEED, O.; GIMENO, D.; AGUILAR, I.; AVENDAÑO, S. Como cambia el rendimiento carnicero con los cruzamientos: calidad de la canal. ln: INIA Tacuarembó. Seminario de actualización técnica, 23 de agosto, 2002. Cruzamientos en bovinos para carnes: Resultados FPTA 083. Tacuarembó, (Uruguay): INIA; Facultad de Agronomía, 2002. p. 31-37 (INIA Serie Actividades de Difusión ; 295) INIA Tacuarembó; Universidad de la República (Uruguay). Facultad de Agronomía; Universidad de la República (Uruguay). Facultad de Química; Frigorífico Tacuarembó; Universidad de la República (Uruguay). Facultad de Veterinaria; Caja NotarialBiblioteca(s): INIA Tacuarembó. |
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Registros recuperados : 218 | |
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