Cargando…

Impact of Genotype Imputation on the Performance of GBLUP and Bayesian Methods for Genomic Prediction

The aim of this study was to evaluate the impact of genotype imputation on the performance of the GBLUP and Bayesian methods for genomic prediction. A total of 10,309 Holstein bulls were genotyped on the BovineSNP50 BeadChip (50 k). Five low density single nucleotide polymorphism (SNP) panels, conta...

Descripción completa

Detalles Bibliográficos
Autores principales:	Chen, Liuhong, Li, Changxi, Sargolzaei, Mehdi, Schenkel, Flavio
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2014
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4099124/ https://www.ncbi.nlm.nih.gov/pubmed/25025158 http://dx.doi.org/10.1371/journal.pone.0101544

Ejemplares similares

Novel methods for genotype imputation to whole-genome sequence and a simple linear model to predict imputation accuracy
por: Larmer, Steven G., et al.
Publicado: (2017)

A new approach for efficient genotype imputation using information from relatives
por: Sargolzaei, Mehdi, et al.
Publicado: (2014)

Multi-population genomic prediction using a multi-task Bayesian learning model
por: Chen, Liuhong, et al.
Publicado: (2014)

Genomic predictions for economically important traits in Brazilian Braford and Hereford beef cattle using true and imputed genotypes
por: Piccoli, Mario L., et al.
Publicado: (2017)

Optimizing Selection of the Reference Population for Genotype Imputation From Array to Sequence Variants
por: Butty, Adrien M., et al.
Publicado: (2019)

Accuracy of genotype imputation in Nelore cattle
por: Carvalheiro, Roberto, et al.
Publicado: (2014)

Accuracy of genome-wide imputation in Braford and Hereford beef cattle
por: Piccoli, Mario L, et al.
Publicado: (2014)

Genomic breeding value prediction and QTL mapping of QTLMAS2011 data using Bayesian and GBLUP methods
por: Zeng, Jian, et al.
Publicado: (2012)

Across population genomic prediction scenarios in which Bayesian variable selection outperforms GBLUP
por: van den Berg, S., et al.
Publicado: (2015)

An efficient exact method to obtain GBLUP and single-step GBLUP when the genomic relationship matrix is singular
por: Fernando, Rohan L., et al.
Publicado: (2016)

Performances of Adaptive MultiBLUP, Bayesian regressions, and weighted-GBLUP approaches for genomic predictions in Belgian Blue beef cattle
por: Gualdrón Duarte, José Luis, et al.
Publicado: (2020)

Evaluation of Bayesian alphabet and GBLUP based on different marker density for genomic prediction in Alpine Merino sheep
por: Zhu, Shaohua, et al.
Publicado: (2021)

deepGBLUP: joint deep learning networks and GBLUP framework for accurate genomic prediction of complex traits in Korean native cattle
por: Lee, Hyo-Jun, et al.
Publicado: (2023)

An Upper Bound for Accuracy of Prediction Using GBLUP
por: Karaman, Emre, et al.
Publicado: (2016)

Comparison of the Efficiency of BLUP and GBLUP in Genomic Prediction of Immune Traits in Chickens
por: Zhang, Jin, et al.
Publicado: (2020)

Prediction of genomic breeding values based on pre-selected SNPs using ssGBLUP, WssGBLUP and BayesB for Edwardsiellosis resistance in Japanese flounder
por: Lu, Sheng, et al.
Publicado: (2020)

ssGBLUP Method Improves the Accuracy of Breeding Value Prediction in Huacaya Alpaca
por: Mancisidor, Betsy, et al.
Publicado: (2021)

A method to obtain exact single-step GBLUP for non-genotyped descendants when the genomic relationship matrix of ancestors is not available
por: Garrick, Dorian J., et al.
Publicado: (2022)

Characteristics of linkage disequilibrium in North American Holsteins
por: Bohmanova, Jarmila, et al.
Publicado: (2010)

Strategies for genotype imputation in composite beef cattle
por: Chud, Tatiane C. S., et al.
Publicado: (2015)

Comparison on genomic predictions using three GBLUP methods and two single-step blending methods in the Nordic Holstein population
por: Gao, Hongding, et al.
Publicado: (2012)

Assessment of genotype imputation methods
por: Biernacka, Joanna M, et al.
Publicado: (2009)

Genotype Imputation with Thousands of Genomes
por: Howie, Bryan, et al.
Publicado: (2011)

Comparison of multiple imputation and other methods for the analysis of imputed genotypes
por: Auer, Paul L., et al.
Publicado: (2023)

Stacked kinship CNN vs. GBLUP for genomic predictions of additive and complex continuous phenotypes
por: Nazzicari, Nelson, et al.
Publicado: (2022)

Comparing performance of modern genotype imputation methods in different ethnicities
por: Roshyara, Nab Raj, et al.
Publicado: (2016)

Impact of pre-imputation SNP-filtering on genotype imputation results
por: Roshyara, Nab Raj, et al.
Publicado: (2014)

Genomic prediction with epistasis models: on the marker-coding-dependent performance of the extended GBLUP and properties of the categorical epistasis model (CE)
por: Martini, Johannes W. R., et al.
Publicado: (2017)

Genome-wide association studies and genomic prediction of breeding values for calving performance and body conformation traits in Holstein cattle
por: Abo-Ismail, Mohammed K., et al.
Publicado: (2017)

Genomic Prediction Using Multi-trait Weighted GBLUP Accounting for Heterogeneous Variances and Covariances Across the Genome
por: Karaman, Emre, et al.
Publicado: (2018)

Evaluation of GBLUP, BayesB and elastic net for genomic prediction in Chinese Simmental beef cattle
por: Wang, Xiaoqiao, et al.
Publicado: (2019)

Genetic architecture of quantitative traits in beef cattle revealed by genome wide association studies of imputed whole genome sequence variants: II: carcass merit traits
por: Wang, Yining, et al.
Publicado: (2020)

Inclusion of Dominance Effects in the Multivariate GBLUP Model
por: dos Santos, Jhonathan Pedroso Rigal, et al.
Publicado: (2016)

Genetic architecture of quantitative traits in beef cattle revealed by genome wide association studies of imputed whole genome sequence variants: I: feed efficiency and component traits
por: Zhang, Feng, et al.
Publicado: (2020)

Accuracy of genomic selection in simulated populations mimicking the extent of linkage disequilibrium in beef cattle
por: Brito, Fernanda V, et al.
Publicado: (2011)

Genotype imputation for the prediction of genomic breeding values in non-genotyped and low-density genotyped individuals
por: Cleveland, Matthew A, et al.
Publicado: (2011)

Validation of single‐step GBLUP genomic predictions from threshold models using the linear regression method: An application in chicken mortality
por: Bermann, Matias, et al.
Publicado: (2020)

Impact of genomic preselection on subsequent genetic evaluations with ssGBLUP using real data from pigs
por: Jibrila, Ibrahim, et al.
Publicado: (2022)

Inbreeding and runs of homozygosity before and after genomic selection in North American Holstein cattle
por: Forutan, Mehrnush, et al.
Publicado: (2018)

Imputation of missing genotypes: an empirical evaluation of IMPUTE
por: Zhao, Zhenming, et al.
Publicado: (2008)

Cannot write session to /tmp/vufind_sessions/sess_dq6gpdatq5ptg62j8m3btr3dmt