The Impact of Genetic Relationship Information on Genome-Assisted Breeding Values

By David Habier, Rohan L. Fernando, J. Dekkers. Genetics, 2007

1,255 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/fd3d5c7274dfb0e2deea25a21e5ebaf26feaca48

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Citations in the corpus

Genomic Selection Accuracy using Multifamily Prediction Models in a Wheat Breeding Program (2011, methodology): “Ridge regression best linear unbiased prediction is equivalent to estimating markers eff ects with a realized-relationship matrix determined from markers (Habier et al., 2007; Goddard, 2009; Piepho, 2009).”
Genomic Selection in Plant Breeding (2011, methodology): “As discussed in the methods section, RR-BLUP modeling marker effects as random are equivalent to a mixed model analysis wherein observations have random effects that covary according to a relationship matrix calculated using marker data (Habier et al., 2007; Hayes et al., 2009c).”
Prediction of Complex Human Traits Using the Genomic Best Linear Unbiased Predictor (2013, neutral): “The result confirms previous findings from the field of animal breeding [11] suggesting important influences of close familial relationships on the PA of G-BLUP methods.”
Plant Breeding with Genomic Selection: Gain per Unit Time and Cost (2010, methodology): “Accuracy declines as generation number between the last model update and selection candidates increases (Habier et al., 2007; Meuwissen et al., 2001; Muir, 2007), because selection causes changes in variances, allele frequencies, and LD relationships between markers and QTL (Bulmer, 1971; Muir, 2007”
Genomic Selection in Plant Breeding: A Comparison of Models (2012, methodology): “An optimal GS method should provide the highest accuracy possible, limit overfi tting on the training dataset, and be based as much as possible on marker-QTL LD rather than on kinship (Habier et al., 2007).”
Extension of the bayesian alphabet for genomic selection (2011, methodology): “The EBVs from P-BLUP and G-BLUP were obtained from solutions of the animal model.”
Marker-Assisted Plant Breeding: Principles and Practices (2015, methodology): “Simulation studies indicate superiority of BayesB over ridge regression when additive gene action is assumed (Meuwissen et al. 2001; Habier et al. 2007).”
Evaluation of genomic selection training population designs and genotyping strategies in plant breeding programs using simulation (2014, background): “…breeding programs have shown that when training populations are small, the training individuals need to be close relatives of the selection candidates if accurate genomic estimated breeding values (gEBV) are to be obtained (e.g., Habier et al., 2007, 2010; Meuwissen, 2009; Clark et al., 2012.”
Genomic Prediction of Hybrid Wheat Performance (2013, methodology): “Moreover, RR-BLUP yielded high prediction accuracy, which is most likely due to an efficient exploitation of the genetic relatedness among tested and untested hybrids (Habier et al., 2007).”
A relationship matrix including full pedigree and genomic information. (2009, methodology): “In principle, the additive variance using G is identical to that using A (Habier et al., 2007).”
Accuracy of Predicting the Genetic Risk of Disease Using a Genome-Wide Approach (2008, positive): “Similarly, improvements in rggˆ can be achieved by implementing model selection least squares procedures to identify a subset of SNP from which to predict effects [10, 19 ], or by using more complex procedures to identify a subset to set to zero [20].”
Genetic Gains in Grain Yield Through Genomic Selection in Eight Bi-parental Maize Populations under Drought Stress (2015, methodology): “Habier et al. (2007), Meuwissen et al.”
Relatedness and Genotype × Environment Interaction Affect Prediction Accuracies in Genomic Selection: A Study in Cassava (2013, neutral): “We performed the k-means method using the Hartigan and Wong (1979) algorithm on marker data and generated for each trait N = (number of nonmissing individuals for a given trait/5) clusters from 10 random initial cluster centers.”
Genomic selection: prediction of accuracy and maximisation of long term response (2009, methodology): “For instance, Habier et al. (2007) predicted the breeding value of descendents 10 generations after the generation in which phenotypes were recorded.”