Efficient Methods to Compute Genomic Predictions
TLDR
Efficient methods for processing genomic data were developed to increase reliability of estimated breeding values and to estimate thousands of marker effects simultaneously, and a blend of first- and second-order Jacobi iteration using 2 separate relaxation factors converged well for allele frequencies and effects.About:
This article is published in Journal of Dairy Science.The article was published on 2008-11-01 and is currently open access. It has received 4196 citations till now. The article focuses on the topics: Best linear unbiased prediction & Allele frequency.read more
Citations
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Improvement of genomic prediction by integrating additional single nucleotide polymorphisms selected from imputed whole genome sequencing data.
Aoxing Liu,Mogens Sandø Lund,Didier Boichard,Emre Karaman,Sébastien Fritz,Gert Pedersen Aamand,U. S. Nielsen,Yachun Wang,Guosheng Su +8 more
TL;DR: Effect of integrating SNPs selected from imputed WGS data into the data of 54K chip on genomic prediction in Danish Jersey found no significant difference between one-component and two-component models, except for using GBLUP models for milk.
Journal ArticleDOI
Dissection of the genetic variation and candidate genes of lint percentage by a genome-wide association study in upland cotton
Chengxiang Song,Wei Li,Pei Xiaoyu,Liu Yangai,Ren Zhongying,He Kunlun,Zhang Fei,Sun Kuan,Zhou Xiaojian,Ma Xiongfeng,Yang Daigang +10 more
TL;DR: A genome-wide associated study identified six novel QTLs for lint percentage, and two candidate genes underlying this trait were also detected, implying that the two genes may act as the most promising regulators of LP.
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Using Different Single-Step Strategies to Improve the Efficiency of Genomic Prediction on Body Measurement Traits in Pig
TL;DR: The results demonstrated that the accuracies of genomic prediction can be further improved by implementing two-trait ssGBLUP model, and the maximum gain on accuracy was 2 and 2.6% for trait of chest width compared to single-traits ssGB lUP and traditional BLUP, while the gain was decreased with the weakness of genetic correlation.
Journal ArticleDOI
A genome-wide single nucleotide polymorphism and copy number variation analysis for number of piglets born alive
Nedenia Bonvino Stafuzza,Nedenia Bonvino Stafuzza,Rafael Medeiros de Oliveira Silva,Rafael Medeiros de Oliveira Silva,Breno O. Fragomeni,Yutaka Masuda,Yijian Huang,Kent A. Gray,Daniela Lourenco +8 more
TL;DR: This research helps to improve the understanding of the genetic architecture of number of piglets born alive, given that the combination of GWAS and CNV analyses allows for a more efficient identification of the genomic regions and biological processes associated with this trait in Duroc pigs.
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Deciphering the genomic architecture of the stickleback brain with a novel multilocus gene‐mapping approach
Zitong Li,Baocheng Guo,Jing Yang,Gábor Herczeg,Gábor Herczeg,Abigél Gonda,Gergely Balázs,Takahito Shikano,Federico C. F. Calboli,Juha Merilä +9 more
TL;DR: The results suggest that variation in stickleback brain traits is influenced by many small‐effect loci, and highlight the challenges in identifying the loci contributing to variation in quantitative traits.
References
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Prediction of Total Genetic Value Using Genome-Wide Dense Marker Maps
TL;DR: It was concluded that selection on genetic values predicted from markers could substantially increase the rate of genetic gain in animals and plants, especially if combined with reproductive techniques to shorten the generation interval.
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Coefficients of Inbreeding and Relationship
TL;DR: The importance of having a coefficient by means of which the degree of inbreeding may be expressed has been brought out by Pearl' in a number of papers published between 1913 and 1917.
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Strategy for applying genome-wide selection in dairy cattle.
TL;DR: Genome-wide selection may become a popular tool for genetic improvement in livestock after a strategy that utilizes these advantages was compared with a traditional progeny testing strategy under a typical Canadian-like dairy cattle situation.
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Derivation, calculation, and use of national animal model information.
Paul M. VanRaden,G.R. Wiggans +1 more
TL;DR: New terms and definitions were developed to explain national USDA genetic evaluations computed by an animal model, whereiability is the squared correlation of predicted and true transmitting ability.
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Accuracy of Genomic Selection Using Different Methods to Define Haplotypes
TL;DR: It was concluded that genomic selection is considerably more accurate than traditional selection, especially for a low-heritability trait.