- Estimate realized genomic relationships (G matrix) using SNP markers with different methods
- Compare realized genomic relationships with pedigree based genetic relationships (A matrix)
- Calculate genomic estimated breeding values using the inverse of the G matrix
Supplemental Files (attached below)
Calculate genomic relationships: Gmatrix_webinar.R
Calculate inverse of G Matrix: Ginverse_Webinar.R
Data Files Used in Demostrations
Part 1 Introduction and Marker Matrices
Part 2 Calculating Genomic Relationships (G matrix): R Demonstration
Part 3 Genetic evaluation with ABLUP and GBLUP: ASReml Demonstration
About the Presenter
Fikret T. Isik
Fikret Isik is Associate Professor and Associate Director of North Carolina State University Cooperative Tree Improvement Program. Dr. Isik has been awarded with USDA Secretary’s Honor Award, NATO post-doctoral fellowships, and the Turkish Higher Education Council honorary Associate Professor of genetics. He is currently involved in the following areas of research: 1) genomic prediction methods in forest tree breeding and development of tree breeding strategies for genomic era; 2) development of a quantitative model of the pathways and regulation of lignin biosynthesis in poplar and 3) pathogen by pine genotype interactions in the fusiform rust - Pinus taeda pathosystem.
Zapata-Valenzuela, J., Whetten, R. W., Neale, D. B., McKeand, S. E., & Isik, F. (2013). Genomic Estimated Breeding Values Using Genomic Relationship Matrices in a Cloned Population of Loblolly Pine. G3: Genes| Genomes| Genetics.
Henderson, C. R. (1984). Linear models in animal breeding.
Mrode, R. A., & Thompson, R. (2005). Linear models for the prediction of animal breeding values. Cabi, UK.
Development of this resource was supported in part by the National Institute of Food and Agriculture (NIFA) Solanaceae Coordinated Agricultural Project, Dry Bean Root Health East Africa, National Institute of Food and Agriculture (NIFA) Coordinated Agricultural Project Conifer Translational Genomics Network and NC State University Cooperative Tree Improvement Program. Any opinions, findings, conclusions, or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the view of the United States Department of Agriculture.