ArticleBMC bioinformatics2013
Analysis of multiple phenotypes in genome-wide genetic mapping studies.
Article in BMC bioinformatics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Genome-wide association study identifies novel variants in olfactory, vitamin A, vitamin B, and cadherin pathways associated with learning and memory.Scientific reports · 2025Article
- Robust tests for multivariate repeated measures with small samples.Journal of applied statistics · 2024Article
- VCSEL: PRIORITIZING SNP-SET BY PENALIZED VARIANCE COMPONENT SELECTION.The annals of applied statistics · 2021Article
- Multi-phenotype genome-wide association studies of the Norfolk Island isolate implicate pleiotropic loci involved in chronic kidney disease.Scientific reports · 2021Article
- A COMPARISON OF PRINCIPAL COMPONENT METHODS BETWEEN MULTIPLE PHENOTYPE REGRESSION AND MULTIPLE SNP REGRESSION IN GENETIC ASSOCIATION STUDIES.The annals of applied statistics · 2020Article
- A joint analysis of metabolomic profiles associated with muscle mass and strength in Caucasian women.Aging · 2018Article
- Joint testing and false discovery rate control in high-dimensional multivariate regression.Biometrika · 2018Article
- Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity.Genome medicine · 2018Article
- A quadratically regularized functional canonical correlation analysis for identifying the global structure of pleiotropy with NGS data.PLoS computational biology · 2017Article
- Common Polymorphisms in IFI16 and AIM2 Genes Are Associated With Periodontal Disease.Journal of periodontology · 2017Article
- A general approach to testing for pleiotropy with rare and common variants.Genetic epidemiology · 2017Article
- AraPheno: a public database for Arabidopsis thaliana phenotypes.Nucleic acids research · 2017Article
- Genome-wide association study of biologically informed periodontal complex traits offers novel insights into the genetic basis of periodontal disease.Human molecular genetics · 2016Article
- Genetic linkage analysis in the age of whole-genome sequencing.Nature reviews. Genetics · 2015Review
- Association Tests of Multiple Phenotypes: ATeMP.PloS one · 2015Article
- Integrating Multiple Correlated Phenotypes for Genetic Association Analysis by Maximizing Heritability.Human heredity · 2015Article
- A Comparison of Statistical Methods for the Discovery of Genetic Risk Factors Using Longitudinal Family Study Designs.Frontiers in immunology · 2015Article
- Plasma levels of soluble interleukin 1 receptor accessory protein are reduced in obesity.The Journal of clinical endocrinology and metabolism · 2014Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundComplex traits may be defined by a range of different criteria. It would result in a loss of information to perform analyses simply on the basis of a final clinical dichotomized affected / unaffected variable.
resultsWe assess the performance of four alternative approaches for the analysis of multiple phenotypes in genetic association studies. We describe the four methods in detail and discuss their relative theoretical merits and disadvantages. Using simulation we demonstrate that PCA provides the greatest power when applied to both correlated phenotypes and with large numbers of phenotypes. The multivariate approach had low type I error only with independent phenotypes or small numbers of phenotypes. In this study, our application of the four methods to schizophrenia data provides converging evidence of the relative performance of the methods.
conclusionsVia power analysis of simulated data and testing of experimental data, we conclude that PCA, creating one variable based on a linear combination of all the traits, performs optimally. We propose that our comparison will provide insight into the properties of the methods and help researchers to choose appropriate strategy in future experimental studies.
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