ArticleBMC genomics2015
Prospects and limits of marker imputation in quantitative genetic studies in European elite wheat (Triticum aestivum L.).
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- Imputation in the Wild: Genome-Wide Robustness and Fine-Scale Limitations of Low-Coverage Genomes in Endangered Species.Molecular ecology resources · 2026Article
- Integration and imputation of GBS-derived and DArTseq-derived SNP markers in assessing genetic diversity of bread wheat genotypes.BMC genomics · 2026Article
- Order from entropy: big data from FAIR data cohorts in the digital age of plant breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Breaking down data silos across companies to train genome-wide predictions: A feasibility study in wheat.Plant biotechnology journal · 2025Article
- Using genotype imputation to integrate Canola populations for genome-wide association and genomic prediction of blackleg resistance.BMC genomics · 2025Article
- Nomogram for Predicting Recurrence-Free Survival of Primary Localized Gastrointestinal Stromal Tumor.Journal of personalized medicine · 2023Article
- Gabi wheat a panel of European elite lines as central stock for wheat genetic research.Scientific data · 2022Article
- Genotype imputation for soybean nested association mapping population to improve precision of QTL detection.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Impact of pre- and post-variant filtration strategies on imputation.Scientific reports · 2021Article
- The potential of hybrid breeding to enhance leaf rust and stripe rust resistance in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Article
- Negative dominance and dominance-by-dominance epistatic effects reduce grain-yield heterosis in wide crosses in wheat.Science advances · 2020Article
- Suitability of Single-Nucleotide Polymorphism Arrays Versus Genotyping-By-Sequencing for Genebank Genomics in Wheat.Frontiers in plant science · 2020Article
- Comparing the Potential of Marker-Assisted Selection and Genomic Prediction for Improving Rust Resistance in Hybrid Wheat.Frontiers in plant science · 2020Article
- Genome-wide association study of agronomic traits in bread wheat reveals novel putative alleles for future breeding programs.BMC plant biology · 2019Article
- Generating High Density, Low Cost Genotype Data in Soybean [G3 (Bethesda, Md.) · 2019Article
- Imputation accuracy of wheat genotyping-by-sequencing (GBS) data using barley and wheat genome references.PloS one · 2019Article
- Exploiting the Rht portfolio for hybrid wheat breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2018Article
- Extracting genotype information of Arabidopsis thaliana recombinant inbred lines from transcript profiles established with high-density oligonucleotide arrays.Plant cell reports · 2017Article
- Phased Genotyping-by-Sequencing Enhances Analysis of Genetic Diversity and Reveals Divergent Copy Number Variants in Maize.G3 (Bethesda, Md.) · 2017Article
- Exome sequence genotype imputation in globally diverse hexaploid wheat accessions.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Article
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8 authors.
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Abstract
backgroundThe main goal of our study was to investigate the implementation, prospects, and limits of marker imputation for quantitative genetic studies contrasting map-independent and map-dependent algorithms. We used a diversity panel consisting of 372 European elite wheat (Triticum aestivum L.) varieties, which had been genotyped with SNP arrays, and performed intensive simulation studies.
resultsOur results clearly showed that imputation accuracy was substantially higher for map-dependent compared to map-independent methods. The accuracy of marker imputation depended strongly on the linkage disequilibrium between the markers in the reference panel and the markers to be imputed. For the decay of linkage disequilibrium present in European wheat, we concluded that around 45,000 markers are needed for low cost, low-density marker profiling. This will facilitate high imputation accuracy, also for rare alleles. Genomic selection and diversity studies profited only marginally from imputing missing values. In contrast, the power of association mapping increased substantially when missing values were imputed.
conclusionsImputing missing values is especially of interest for an economic implementation of association mapping in breeding populations.
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