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Registro completo
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Biblioteca (s) : |
INIA Las Brujas. |
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Fecha actual : |
31/03/2021 |
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Actualizado : |
31/03/2021 |
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Tipo de producción científica : |
Trabajos en Congresos/Conferencias |
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Autor : |
FORNERIS, N. S.; LEGARRA, A.; VITEZICA, Z. G.; TSURUTA, S.; AGUILAR, I.; CANTET, R.J.C.; MISZTAL, I. |
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Afiliación : |
NATALIA S. FORNERIS, Department of Animal Science, University of Buenos Aires, Argentina; ANDRÉS LEGARRA, INRA, Castanet-Tolosan, France; ZULMA G VITEZICA, INRA, Castanet-Tolosan, France; SHOGO TSURUTA, University of Georgia, Athens, GA, USA; IGNACIO AGUILAR GARCIA, INIA (Instituto Nacional de Investigación Agropecuaria), Uruguay; RODOLFO J.C. CANTET, Department of Animal Science, University of Buenos Aires, Argentina; # CONICET, Argentina.; IGNACY MISZTAL, University of Georgia, Athens, GA, USA. |
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Título : |
Quality control of genotypes using heritability estimates of gene content. |
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Complemento del título : |
Volume Genetic Improvement Programs: Selection using molecular information (Posters), 471. |
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Fecha de publicación : |
2014 |
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Fuente / Imprenta : |
In: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.471. |
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Idioma : |
Inglés |
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Contenido : |
ABSTRACT.
Quality control filtering of single nucleotide polymorphisms (SNP) is a key step when analyzing genomic data. Here, we present a practical method to identify poorly genotyped SNPs by detecting those for which gene content deviates from the pedigree-based expectation. This can be achieved by estimating the heritability of gene content at each marker, defined as the number of copies of a particular reference allele in a genotype of an animal (0, 1 or 2). The method uses Restricted Maximum Likelihood (REML) to estimate heritability of gene content at each SNP and also builds a likelihood ratio test statistic to test for zero error variance in genotyping. The proposed method is illustrated with a real dataset with genotypes from Illumina PorcineSNP60 chip. |
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Palabras claves : |
Gene Content; Heritability; Likelihood Ratio; Quality Control. |
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Asunto categoría : |
L10 Genética y mejoramiento animal |
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URL : |
http://www.ainfo.inia.uy/digital/bitstream/item/15444/1/Forneris-et-al.-2014.-WCGALP.pdf
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Marc : |
LEADER 01515nam a2200229 a 4500
001 1061920
005 2021-03-31
008 2014 bl uuuu u01u1 u #d
100 1 $aFORNERIS, N. S.
245 $aQuality control of genotypes using heritability estimates of gene content.$h[electronic resource]
260 $aIn: Proceedings of the World Congress on Genetics Applied to Livestock Production, 10., Vancouver, BC, Canada, August 17-22, 2014. p.471.$c2014
520 $aABSTRACT. Quality control filtering of single nucleotide polymorphisms (SNP) is a key step when analyzing genomic data. Here, we present a practical method to identify poorly genotyped SNPs by detecting those for which gene content deviates from the pedigree-based expectation. This can be achieved by estimating the heritability of gene content at each marker, defined as the number of copies of a particular reference allele in a genotype of an animal (0, 1 or 2). The method uses Restricted Maximum Likelihood (REML) to estimate heritability of gene content at each SNP and also builds a likelihood ratio test statistic to test for zero error variance in genotyping. The proposed method is illustrated with a real dataset with genotypes from Illumina PorcineSNP60 chip.
653 $aGene Content
653 $aHeritability
653 $aLikelihood Ratio
653 $aQuality Control
700 1 $aLEGARRA, A.
700 1 $aVITEZICA, Z. G.
700 1 $aTSURUTA, S.
700 1 $aAGUILAR, I.
700 1 $aCANTET, R.J.C.
700 1 $aMISZTAL, I.
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INIA Las Brujas (LB) |
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