Additional file 2 of Genomic prediction with whole-genome sequence data in intensely selected pig lines

Ros-Freixedes, Roger; Johnsson, Martin; Whalen, Andrew; Chen, Ching-Yi; Valente, Bruno D.; Herring, William O.; Gorjanc, Gregor; Hickey, John M.

doi:10.6084/m9.figshare.21202728.v1

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Additional file 2 of Genomic prediction with whole-genome sequence data in intensely selected pig lines

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posted on 2022-09-25, 15:24 authored by Roger Ros-Freixedes, Martin Johnsson, Andrew Whalen, Ching-Yi Chen, Bruno D. Valente, William O. Herring, Gregor Gorjanc, John M. Hickey

Additional file 2: Figure S2. Prediction accuracy for all traits and lines.

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Biotechnology and Biological Sciences Research Council Innovate UK Svenska Forskningsrådet Formas Genus plc

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statistically significant associations genome sequence data eight complex traits different numerical sizes allele substitution effects standard marker array sequenced 6931 individuals around 80k individuals robust across traits line training sets 8 million variants line genomic predictions standard marker arrays perform genomic prediction scale wgs data largest training sets larger training sets large pig dataset genomic predictions compared genomic predictions based marker arrays could genomic prediction compared genomic predictions within preselected wgs variants training sets genomic predictions marker arrays genomic prediction variants preselected preselected variants genomic diversity 100 individuals wgs compared wgs based largest advantage across breeds 04 compared prediction accuracy wgs provides using wgs used bayesr population must optimised pipelines limited potential larger improvements identify scenarios generally small current implementations could improve carefully evaluated average improved association tests

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Additional file 2 of Genomic prediction with whole-genome sequence data in intensely selected pig lines

Funding

Biotechnology and Biological Sciences Research Council Innovate UK Svenska Forskningsrådet Formas Genus plc

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