ArticleBMC bioinformatics2009
Effects of normalization on quantitative traits in association test.
Article in BMC bioinformatics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
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- Comparative quantitative trait loci analysis framework reveals relationships between salt stress responsive phenotypes and pathways.Frontiers in plant science · 2024Article
- Genomic and transcriptomic analyses reveal polygenic architecture for ecologically important traits in aspen (Ecology and evolution · 2023Article
- Common genetic variants contribute to heritability of age at onset of schizophrenia.Translational psychiatry · 2023Article
- Spatial effects of the agricultural ecosystem services based on environmental kuznets curve in Mengyin county, China.Heliyon · 2023Article
- Genetic Diversity and Association Analysis for Carotenoid Content among Sprouts of Cowpea (International journal of molecular sciences · 2022Article
- Article
- Preparation and Curation of Omics Data for Genome-Wide Association Studies.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Pharmacokinetics and Genetic Factors of Atorvastatin in Healthy Korean Subjects.Frontiers in genetics · 2022Article
- Development of SNP Set for the Marker-Assisted Selection of Guar (Plants (Basel, Switzerland) · 2021Article
- Evidence for specificity of polygenic contributions to attainment in English, maths and science during adolescence.Scientific reports · 2021Article
- Genome-Wide Association Mapping Identifies Novel Panicle Morphology Loci and Candidate Genes in Sorghum.Frontiers in plant science · 2021Article
- Associated SNPs, Heritabilities, Trait Correlations, and Genomic Breeding Values for Resistance in Snap Beans (Frontiers in plant science · 2021Article
- Genetic Architecture of Early Vigor Traits in Wild Soybean.International journal of molecular sciences · 2020Article
- Genome-Wide Mapping of Loci Associated With Resistance to Clubroot inFrontiers in plant science · 2020Article
- Genome-wide association study of the seed transmission rate of soybean mosaic virus and associated traits using two diverse population panels.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2019Article
- GWAS with principal component analysis identifies a gene comprehensively controlling rice architecture.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Predictive metabolomic profiling of microbial communities using amplicon or metagenomic sequences.Nature communications · 2019Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundQuantitative trait loci analysis assumes that the trait is normally distributed. In reality, this is often not observed and one strategy is to transform the trait. However, it is not clear how much normality is required and which transformation works best in association studies.
resultsWe performed simulations on four types of common quantitative traits to evaluate the effects of normalization using the logarithm, Box-Cox, and rank-based transformations. The impact of sample size and genetic effects on normalization is also investigated. Our results show that rank-based transformation gives generally the best and consistent performance in identifying the causal polymorphism and ranking it highly in association tests, with a slight increase in false positive rate.
conclusionFor small sample size or genetic effects, the improvement in sensitivity for rank transformation outweighs the slight increase in false positive rate. However, for large sample size and genetic effects, normalization may not be necessary since the increase in sensitivity is relatively modest.
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