A Family-Based Association Test for Repeatedly Measured Quantitative Traits Adjusting for Unknown Environmental and/or Polygenic Effects

Lange Christoph, Kristel van Steen, Andrew Toby, Lyon Helen, DeMeo Dawn L, Raby Benjamin, Murphy Amy, Silverman Edwin K, MacGregor Alex, Weiss Scott T and Laird Nan M
Additional contact information
Lange Christoph: Harvard School of Public Health
Kristel van Steen: Harvard School of Public Health
Andrew Toby: St Thomas’ Hospital, London SE1 7EH, UK
Lyon Helen: Harvard Medical School
DeMeo Dawn L: Brigham and Women
Raby Benjamin: Harvard Medical School
Murphy Amy: Harvard School of Public Health
Silverman Edwin K: Brigham and Women
MacGregor Alex: St Thomas’ Hospital, London
Weiss Scott T: Harvard Medical School
Laird Nan M: Harvard School of Public Health

Statistical Applications in Genetics and Molecular Biology, 2004, vol. 3, issue 1, 29

Abstract: We propose a family-based association test, FBAT-PC, for studies with quantitative traits that are measured repeatedly. The traits may be influenced by partially or completely unknown factors that may vary for each measurement. Using generalized principal component analysis, FBAT-PC amplifies the genetic effects of each measurement by constructing an overall phenotype with maximal heritability. Analytically, and in the simulation studies, we compare FBAT-PC with standard methodology and assess both the heritability of the overall phenotype and the power of FBAT-PC. Compared to univariate analysis, FBAT-PC achieves power gains of up to 200%. Applications of FBAT-PC to an osteoporosis study and to an asthma study show the practical relevance of FBAT-PC. FBAT-PC has been implemented in the software package PBAT and is freely available at http://www.biostat.harvard.edu/~clange/default.htm.

Keywords: family-based association test; unknown environmental and/or polygenic effects (search for similar items in EconPapers)
Date: 2004
References: View complete reference list from CitEc
Citations: View citations in EconPapers (3)

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DOI: 10.2202/1544-6115.1067

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