As all the GWAS are with Arabidopsis accessions we did the GWAS using the 1001 genomes tool (easyGWAS https://easygwas.ethz.ch/).
We used the EMMAX algorithm, MAF=0.05.
We used the amounts of each glucosinolate as a trait for each GWAS.
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How to cite:
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
Katz, E and Kliebenstein, D(2022). Genome-wide association studies. Bio-protocol Preprint. bio-protocol.org/prep1546.
Katz, E., Li, J., Jaegle, B., Ashkenazy, H., Abrahams, S. R., Bagaza, C., Holden, S., Pires, C. J., Angelovici, R. and Kliebenstein, D. J.(2021). Genetic variation, environment and demography intersect to shape Arabidopsis defense metabolite variation across Europe. eLife. DOI: 10.7554/eLife.67784
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