University of Oulu

Mathew B., M. J. Sillanpaa and J. Leon (2019) Advances in statistical methods to handle large data sets for GWAS in crop breeding. A book chapter in "Advances in crop breeding techniques in cereal crops" (Ed. Prof. Frank Ordon and Prof. Wolfgang Friedt), Burleigh Dodds Science Publishing, pp. 437-450. DOI: 10.19103/AS.2019.0051.20

Advances in statistical methods to handle large data sets for GWAS in crop breeding

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Author: Mathew, Boby1; Sillanpää, Mikko J.2; Léon, Jens1
Organizations: 1Institute of Crop Science and Resource Conservation, University of Bonn, 53115, Bonn, Germany
2Department of Mathematical Sciences and Biocenter Oulu, University of Oulu, FIN-90014, Finland
Format: article
Version: accepted version
Access: open
Online Access: PDF Full Text (PDF, 0.2 MB)
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Language: English
Published: Burleigh Dodds Science Publishing, 2019
Publish Date: 2019-08-09


One of the most important statistical methods of handling large data sets for genome-wide association mapping (GWAS) is quantitative trait loci (QTL) analysis. Two approaches to QTL analysis are linkage analysis (LA) and linkage disequilibrium (LD) mapping. Even though association and linkage mapping are viewed as fundamentally different approaches, both methods try to make use of recombination events. This chapter discusses some of the main challenges for GWAS studies with large data sets. This chapter describes both single-locus and multilocus association models, before going on to discuss high dimensional data space in GWAS, the significance threshold for association, and dimensionality reduction methods. Finally, the chapter looks ahead to future trends in this field.

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Series: Burleigh Dodds series in agricultural science
ISSN: 2059-6936
ISSN-E: 2059-6944
ISSN-L: 2059-6936
ISBN: 978-1-78676-244-3
Issue: 60
Pages: 437 - 450
DOI: 10.19103/AS.2019.0051.20
Host publication: Advances in breeding techniques for cereal crops
Host publication editor: Ordon, Frank
Friedt, Wolfgang
Type of Publication: A3 Book chapter
Field of Science: 4111 Agronomy
112 Statistics and probability
1184 Genetics, developmental biology, physiology
Copyright information: © Burleigh Dodds Science Publishing Limited, 2019. All rights reserved. Published in this repository with the kind permission of the publisher.