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A Bayesian Approach for Joint Estimation of Genomic Breeding Values ​​for Continuous Traits and Threshold Traits

A technology of joint estimation and breeding value, applied in the Bayesian field, can solve the problem of lack of joint analysis, and achieve the effect of increasing the prediction accuracy

Inactive Publication Date: 2019-02-05
INST OF ANIMAL HUSBANDRY & VETERINARY MEDICINE ANHUI ACAD OF AGRI SCI
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Problems solved by technology

However, joint analysis of continuous and threshold traits is lacking

Method used

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  • A Bayesian Approach for Joint Estimation of Genomic Breeding Values ​​for Continuous Traits and Threshold Traits
  • A Bayesian Approach for Joint Estimation of Genomic Breeding Values ​​for Continuous Traits and Threshold Traits
  • A Bayesian Approach for Joint Estimation of Genomic Breeding Values ​​for Continuous Traits and Threshold Traits

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Embodiment Construction

[0061] This example proposes a new Bayesian method based on the line-threshold model, called LT-BayesCπ, for joint analysis of continuous traits and threshold traits.

[0062] 1. Method

[0063] 1.1 Model

[0064] let y′ 1 ={y 1，i}, i=1, 2,..., n is the observation value vector of continuous traits, y' 2 ={y 2，i}, i=1, 2,..., n is the threshold trait observation value vector, l'={l i}, i=1, 2, ..., n is the latent variable vector associated with the threshold trait. The line-threshold model is:

[0065] where β 1 , β 2 is the fixed effect vector; g 1 , g 2 is the SNP effect vector; e 1 、e 2 is the random residual vector; x 1 、x 2 for β 1 , β 2 The association matrix of ; Z is the genotype indicator matrix, where assignments 0, 1, and 2 correspond to 11, 12, and 22 of the genotype, respectively. Let v'=[y' 1 , l′], given β and g, v obeys the following distribution:

[0066]

[0067] where β'=[β' 1 ,β′ 2 ], g'=[g' 1 , g′ 2 ],

[0068] Then given β,...

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Abstract

The invention discloses a Bayesian method for jointly estimating the genetic group breeding value of continuous traits and threshold traits. This method is a new Bayesian method based on the line-threshold model, called LT‑BayesCπ, which is used for joint analysis of continuous traits and threshold traits. Using simulated data and the public data of the 14th QTL-MAS International Symposium to verify LT-BayesCπ, the accuracy of its genome prediction was compared with BayesCπ and BayesTCπ based on single-trait models, and the influencing factors of its performance were studied. The present results show that, in all cases, LT-BayesCπ has a significantly increased genomic prediction accuracy than BayesTCπ for threshold traits, while accuracy for continuous traits is comparable to BayesCπ.

Description

technical field [0001] The invention relates to a Bayesian method for jointly estimating the genome breeding value of continuous traits and threshold traits. Background technique [0002] With the development of single nucleotide polymorphism (SNP) chips and genotype sequencing technologies, many genome-wide polymorphisms have been used in animal and plant breeding practices. Genome selection can use the whole genome marker information to predict the genetic value of breeding stock without the phenotype information of the individual itself. In the classical genome prediction process, the SNP effects are first estimated using individual composition parameters with both genotype and phenotype information, and then these estimated effects are used to construct prediction equations to calculate their genomic breeding values ​​based on the genotypes of candidate individuals (GEBVs). Therefore, in genomic selection, a suitable model is the key to accurately predict genomic breed...

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G16B40/00
CPCG16B40/00
Inventor 王重龙丁向东李秀金钱蓉张勤
Owner INST OF ANIMAL HUSBANDRY & VETERINARY MEDICINE ANHUI ACAD OF AGRI SCI
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