Family-based bivariate association tests for quantitative traits

Lei Zhang, Aaron J. Bonham, Jian Li, Yu Fang Pei, Jie Chen, Christopher J. Papasian, Hong Wen Deng

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

The availability of a large number of dense SNPs, high-throughput genotyping and computation methods promotes the application of family-based association tests. While most of the current family-based analyses focus only on individual traits, joint analyses of correlated traits can extract more information and potentially improve the statistical power. However, current TDT-based methods are low-powered. Here, we develop a method for tests of association for bivariate quantitative traits in families. In particular, we correct for population stratification by the use of an integration of principal component analysis and TDT. A score test statistic in the variance-components model is proposed. Extensive simulation studies indicate that the proposed method not only outperforms approaches limited to individual traits when pleiotropic effect is present, but also surpasses the power of two popular bivariate association tests termed FBAT-GEE and FBAT-PC, respectively, while correcting for population stratification. When applied to the GAW16 datasets, the proposed method successfully identifies at the genome-wide level the two SNPs that present pleiotropic effects to HDL and TG traits.

Original languageEnglish (US)
Article numbere8133
JournalPloS one
Volume4
Issue number12
DOIs
StatePublished - Dec 1 2009

Fingerprint

quantitative traits
Principal component analysis
Genes
Throughput
Statistics
Availability
testing
Single Nucleotide Polymorphism
methodology
application methods
genotyping
Principal Component Analysis
principal component analysis
statistics
Population
Joints
genome
Genome

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)
  • General

Cite this

Zhang, L., Bonham, A. J., Li, J., Pei, Y. F., Chen, J., Papasian, C. J., & Deng, H. W. (2009). Family-based bivariate association tests for quantitative traits. PloS one, 4(12), [e8133]. https://doi.org/10.1371/journal.pone.0008133

Family-based bivariate association tests for quantitative traits. / Zhang, Lei; Bonham, Aaron J.; Li, Jian; Pei, Yu Fang; Chen, Jie; Papasian, Christopher J.; Deng, Hong Wen.

In: PloS one, Vol. 4, No. 12, e8133, 01.12.2009.

Research output: Contribution to journalArticle

Zhang, L, Bonham, AJ, Li, J, Pei, YF, Chen, J, Papasian, CJ & Deng, HW 2009, 'Family-based bivariate association tests for quantitative traits', PloS one, vol. 4, no. 12, e8133. https://doi.org/10.1371/journal.pone.0008133
Zhang, Lei ; Bonham, Aaron J. ; Li, Jian ; Pei, Yu Fang ; Chen, Jie ; Papasian, Christopher J. ; Deng, Hong Wen. / Family-based bivariate association tests for quantitative traits. In: PloS one. 2009 ; Vol. 4, No. 12.
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