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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha : |
21/02/2014 |
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Actualizado : |
18/12/2018 |
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Tipo de producción científica : |
Artículos Indexados |
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Autor : |
AGUILAR, I.; LEGARRA, A.; TSURUTA, S.; MISZTAL, I. |
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Afiliación : |
IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay. |
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Título : |
Genetic evaluation using unsymmetric single step genomic methodology with large number of genotypes. |
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Fecha de publicación : |
2013 |
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Fuente / Imprenta : |
Interbull Bulletin, 2013, v. 47, p. 222-225. |
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Idioma : |
Inglés |
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Contenido : |
ABSTRACT.
The single step genomic methodology provides a unified framework to integrate phenotypic, pedigree and genomic information in the prediction of breeding values. Minimal modifications of current softwares are necessary in order to incorporate extra relationship matrices, however computing such matrices has a cubic cost. Recently, a system of equations relaxing the computing cost of creating the inverse of the genomic relationship matrix was presented, which creates an unsymmetric system of equations. Bi Conjugate Gradient Stabilized solvers (BiCGSTAB) were proposed to solve unsymmetric system of equations and also can be used with iteration on data programs, resulting in a good choice for solving large-scale genetic evaluations. Here we describe the implementation of a large genetic evaluation using unsymmetric solvers within the iteration on data framework. Comparison with the regular single-step methodology is presented and the effects of different preconditioners and data structures on the convergence pattern were studied. A large scale genetic evaluation was feasible, however required more rounds to get convergence compared with the regular single-step. More sophisticated preconditioners are necessary to improve the convergence for solving unsymmetric single-step genomic evaluations. |
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Palabras claves : |
BICGSTAB; GENETIC EVALUATION; GENOMIC SELECTION; SINGLE-STEP. |
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Asunto categoría : |
-- |
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URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/12205/1/1326-2215-1-PB.pdf
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Marc : |
LEADER 01912naa a2200205 a 4500
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100 1 $aAGUILAR, I.
245 $aGenetic evaluation using unsymmetric single step genomic methodology with large number of genotypes.$h[electronic resource]
260 $c2013
520 $aABSTRACT. The single step genomic methodology provides a unified framework to integrate phenotypic, pedigree and genomic information in the prediction of breeding values. Minimal modifications of current softwares are necessary in order to incorporate extra relationship matrices, however computing such matrices has a cubic cost. Recently, a system of equations relaxing the computing cost of creating the inverse of the genomic relationship matrix was presented, which creates an unsymmetric system of equations. Bi Conjugate Gradient Stabilized solvers (BiCGSTAB) were proposed to solve unsymmetric system of equations and also can be used with iteration on data programs, resulting in a good choice for solving large-scale genetic evaluations. Here we describe the implementation of a large genetic evaluation using unsymmetric solvers within the iteration on data framework. Comparison with the regular single-step methodology is presented and the effects of different preconditioners and data structures on the convergence pattern were studied. A large scale genetic evaluation was feasible, however required more rounds to get convergence compared with the regular single-step. More sophisticated preconditioners are necessary to improve the convergence for solving unsymmetric single-step genomic evaluations.
653 $aBICGSTAB
653 $aGENETIC EVALUATION
653 $aGENOMIC SELECTION
653 $aSINGLE-STEP
700 1 $aLEGARRA, A.
700 1 $aTSURUTA, S.
700 1 $aMISZTAL, I.
773 $tInterbull Bulletin, 2013$gv. 47, p. 222-225.
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INIA Las Brujas (LB) |
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| Registros recuperados : 217 | |
| 41. |  | WILLIAMS, J.L.; AGUILAR, I.; REKAYA, R.; BERTRAND, J.K. Estimation of breed and heterosis effects for growth and carcass traits in cattle using published crossbreeding studies. Journal of Animal Science, 2010, v.88, no.2, p.460-466. Article history: Received November 7, 2008. / Accepted October 2, 2009.| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : A - 1 |
| Biblioteca(s): INIA Las Brujas. |
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| 45. | | PRAVIA, M.I.; NAVAJAS, E.; AGUILAR, I.; RAVAGNOLO, O. Evaluation of feed efficiency traits in different Hereford populations and their effect on variance component estimation. Animal Production Science, 2022, Volume 62, Issue 17, pages 1652-1660. doi: https://doi.org/10.1071/AN21420 Article history: Submitted 24 August 2021; Accepted 10 June 2022; Published online 1 August 2022. -- Handling Editor: Sue Hatcher. --
Corresponding author: Pravia, M.I.; Instituto Nacional de Investigación Agropecuaria (INIA), Estación...| Tipo: Artículos en Revistas Indexadas Internacionales | Circulación / Nivel : Internacional - -- |
| Biblioteca(s): INIA Las Brujas. |
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| 48. | | SIGDEL, A.; AGUILAR, I.; ABDOLLAHI-ARPANAHI, R.; PEÑAGARICANO, F. Genetic analysis of heat tolerance for production and health traits in US Holstein cows. Volume Biology & Species - Bovine (dairy) 1, 916. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 11., Aotea Centre Auckland, New Zealand: WCGALP, ICAR, 11-16 feb 2018. 6 p.| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 52. | | RAVAGNOLO, O.; AGUILAR, I.; LEMA, O.M.; GOLDBERG, V. Genetic parameters for cow weight in pasture fed Hereford cattle. Volume Species Breeding: Beef cattle (Posters), ,760. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.760.| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 54. | | FRIONI, N.; URIOSTE, J.I.; AGUILAR, I.; ROVERE, G. Genetic parameters of days open, milk, fat and protein yield of uruguayan Holstein on pasture systems. GMA 8 - COMUNICACIONES LIBRES - GMA. GENÉTICA Y MEJORAMIENTO ANIMAL In: JOURNAL OF BASIC & APPLIED GENETICS, 2016, Vol.27, Iss. 1 (Supp.). XVI LATIN AMERICAN CONGRESS OF GENETICS, IV CONGRESS OF THE URUGUAYAN SOCIETY OF GENETICS, XLIX ANNUAL MEETING OF THE GENETICS SOCIETY OF CHILE, XLV ARGENTINE CONGRESS OF GENETICS, 9-12 October 2016. PROCEEDINGS. Montevideo (Uruguay): SAG, 2016. p. 190| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 55. | | TSURUTA, S.; MISZTAL, I.; AGUILAR, I.; LAWLOR, T. J. Genome wide association study on cow mortality in three US regions. Volume Species Breeding: Dairy cattle (Posters), 805. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.805.| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 56. | | FORNI, S.; AGUILAR, I.; MISZTAL, I.; DEEB, N. Genomic relationships and biases in the evaluation of sow litter size. Volume Genetic improvement programmes: Selection using molecular information - Poster Sessions, 0506. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 9., Leipzig, Germany, August 1-6, 2010. p. 0506.| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 59. | | AGUILAR, I.; MISZTAL, I.; LEGARRA, A.; TSURUTA, S. Efficient computations of genomic relationship matrix and other matrices used in the single-step evaluation. Volume Methods and tools: Software and bioinformatics - Lecture Sessions, 0768. In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 9., Leipzig, Germany, August 1-6, 2010. p. 0768. Acknowledgments: This study was partially funded by the Holstein Association USA Inc. and by AFRI grants 2009-65205-05665 and 2010-65205-20366 from the USDA NIFA Animal Genome Program. The authors thank P.M. VanRaden from Animal...| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| 60. | | PRAVIA, M.I.; NAVAJAS, E.; AGUILAR, I.; RAVAGNOLO, O. Incorporación de información genómica en la estimación del mérito genético de consumo residual de alimento. In: AUPA, Proceedings del VII Congreso Uruguayo de Producción Animal. Sección Cambio Climático y Producción Sostenible (Climate Change Section), 14 y 15 diciembre 2021. Archivos Latinoamericanos de Producción Animal, 29(Supl.1), p.74-76. (Archivos Latinoamericanos de Producción Animal, Vol.29, Supl.1) Corresponding author: M.I. Pravia, Instituto Nacional de Investigación Agropecuaria (INIA), Las Brujas, Rincón del Colorado, Canelones (Uruguay), mailto: mpravia@inia.org.uy| Tipo: Trabajos en Congresos/Conferencias |
| Biblioteca(s): INIA Las Brujas. |
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| Registros recuperados : 217 | |
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