COMPARISON OF PARAMETRIC AND RESAMPLING METHODS IN GENETIC EVALUATION OF QUANTITATIVE TRAITS WITH DIFFERENT GENETIC STRUCTURE

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MORADI MANOOCHER; ABDOLLAHI ARPANAHI ROSTAM; HEMATI BEHZAD; LAVVAF ABOLGHASEM

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Journal: Journal of Animal Production Year:2017 | Volume:19 | Issue:1 Page(s): 1-12

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Title

COMPARISON OF PARAMETRIC AND RESAMPLING METHODS IN GENETIC EVALUATION OF QUANTITATIVE TRAITS WITH DIFFERENT GENETIC STRUCTURE

Author(s)

MORADI MANOOCHER | ABDOLLAHI ARPANAHI ROSTAM | HEMATI BEHZAD | LAVVAF ABOLGHASEM | Issue Writer Certificate

Keywords

BAGGINGQ1

GENETIC ARCHITECTUREQ1

GENOMIC EVALUATIONQ1

MACHINE LEARNINGQ1

RANDOM FORESTQ1

RKHSQ1

Abstract

The objective of this study was to compare three parametric (GBLUP, BayesB and RKHS) and two resampling (BAGGING GBLUP and RANDOM FOREST) statistical methods in genomic prediction of traits with different GENETIC ARCHITECTURE. A genome consisting of three chromosomes, 1 Morgan each, was simulated on which 5000 SNPs and 50, 100 and 200 QTLs were distributed. The substitutions effects of QTLs were modeled with normal, gamma and uniform distributions with a level of heritability equal to 0. 30. The predictive performance of statistical models was evaluated using the correlation between predicted and true breeding values as well as the regression of predicted values on true breeding values. In the target population, RANDOM FOREST resulted in overestimation of estimated regression coefficients while GBLUP, BayesB and RKHS led to an underestimation of regression coefficients of true breeding values on predicted breeding values. In exception of BAGGING GBLUP, the performance of all statistical methods was the same in three gene effect distributions. However, the performance of GBLUP and BayesB was better than other statistical methods. A reason for this superiority could be the additive architecture of simulated traits. In conclusion, GBLUP and BayesB were superior over resampling methods in genomic predictions.

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APA: Copy

MORADI, MANOOCHER, ABDOLLAHI ARPANAHI, ROSTAM, HEMATI, BEHZAD, & LAVVAF, ABOLGHASEM. (2017). COMPARISON OF PARAMETRIC AND RESAMPLING METHODS IN GENETIC EVALUATION OF QUANTITATIVE TRAITS WITH DIFFERENT GENETIC STRUCTURE. JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE), 19(1 ), 1-12. SID. https://sid.ir/paper/209175/en

Vancouver: Copy

MORADI MANOOCHER, ABDOLLAHI ARPANAHI ROSTAM, HEMATI BEHZAD, LAVVAF ABOLGHASEM. COMPARISON OF PARAMETRIC AND RESAMPLING METHODS IN GENETIC EVALUATION OF QUANTITATIVE TRAITS WITH DIFFERENT GENETIC STRUCTURE. JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE)[Internet]. 2017;19(1 ):1-12. Available from: https://sid.ir/paper/209175/en

IEEE: Copy

MANOOCHER MORADI, ROSTAM ABDOLLAHI ARPANAHI, BEHZAD HEMATI, and ABOLGHASEM LAVVAF, “COMPARISON OF PARAMETRIC AND RESAMPLING METHODS IN GENETIC EVALUATION OF QUANTITATIVE TRAITS WITH DIFFERENT GENETIC STRUCTURE,” JOURNAL OF ANIMAL PRODUCTION (JOURNAL OF AGRICULTURE), vol. 19, no. 1 , pp. 1–12, 2017, [Online]. Available: https://sid.ir/paper/209175/en

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