ArticleFrontiers in plant science2023
Haplotype blocks for genomic prediction: a comparative evaluation in multiple crop datasets.
Article in Frontiers in plant science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Genetic dissection of cold tolerance across developmental stages in sorghum reveals stage-specific haplotypes and potential trade-offs.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Efficiency under epistasis of haplotype-based genomic selection for pure line breeding.Heredity · 2026Article
- Constitution and function of intergenic genome regions in cultivated versus annual wild soybean in China.Journal of integrative plant biology · 2026Article
- Wheat's war against stripe rust: Integrating host immunity, genomics and breeding for durable resistance.The plant genome · 2026Review
- A benchmarking of genomic selection models for predicting grain-yield related traits using haplotype-based and genome-wide association study-based markers in rice.The plant genome · 2026Article
- Genomic selection for seed yield enhances flax breeding efficiency.Molecular breeding : new strategies in plant improvement · 2026Article
- MoEGP: an efficient crop genomic prediction approach based on the mixture of experts network.Plant methods · 2026Article
- Haplotype applications in genomic selection.Genome biology · 2026Review
- MAGIC populations: a next-generation framework for dissecting complex quantitative traits and accelerating molecular breeding in crops.Frontiers in plant science · 2026Review
- HaploVar: An R package for defining local haplotype variants for trait association and trait prediction analyses.Bioinformatics (Oxford, England) · 2025Article
- Haplotype-based autoencoders can reduce the dataset dimension and estimate haplotype block effects in different crop species.BMC bioinformatics · 2025Article
- The effect of haplotype size on genomic selection accuracy and epistasis: An empirical study in rice.The plant genome · 2025Article
- Genotype imputation from low-coverage WGS using haplotype reference panels in cultivated strawberry.BMC genomics · 2025Article
- Article
- Haplotype stacking to improve stability of stripe rust resistance in wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Genetic mapping and haplotype analysis identify novel candidate genes for high night temperature tolerance in winter wheat.The plant genome · 2025Article
- Genomic selection for growth and wood properties in multi-generation hybrid populations ofHorticulture research · 2025Article
- Genetic dissection of plant architecture reveals haplotypes controlling sink-related traits in oilseed rape under limited nitrogen fertilization.BMC plant biology · 2025Article
- Genomic selection with GWAS-identified QTL markers enhances prediction accuracy for quantitative traits in poplar (Populus deltoides).Communications biology · 2025Article
- Breaking down data silos across companies to train genome-wide predictions: A feasibility study in wheat.Plant biotechnology journal · 2025Article
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4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
In modern plant breeding, genomic selection is becoming the gold standard for selection of superior genotypes. The basis for genomic prediction models is a set of phenotyped lines along with their genotypic profile. With high marker density and linkage disequilibrium (LD) between markers, genotype data in breeding populations tends to exhibit considerable redundancy. Therefore, interest is growing in the use of haplotype blocks to overcome redundancy by summarizing co-inherited features. Moreover, haplotype blocks can help to capture local epistasis caused by interacting loci. Here, we compared genomic prediction methods that either used single SNPs or haplotype blocks with regards to their prediction accuracy for important traits in crop datasets. We used four published datasets from canola, maize, wheat and soybean. Different approaches to construct haplotype blocks were compared, including blocks based on LD, physical distance, number of adjacent markers and the algorithms implemented in the software "
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.