Joint segregation and linkage analysis of a quantitative trait compared to separate analyses

Genetic Epidemiology
W J GaudermanC L Carpenter

Abstract

Our goal was to determine the degree to which joint segregation and linkage analysis leads to increased efficiency for estimating the recombination fraction and to greater power for detecting linkage, compared to separate analyses. We concentrated on the quantitative phenotype Q2 and analyzed linkage with a tightly linked marker, a loosely linked marker, and eight unlinked markers, the latter chosen to evaluate false positive rates. We considered both nuclear-family and extended-pedigree data, using the 200 replicates of each provided to GAW participants. We found joint analysis to be consistently more efficient, with relative efficiencies for the tightly linked marker of 1.16 and 1.06 in extended pedigrees and nuclear families, respectively. These relative efficiencies translated into modest but consistent gains in power to detect linkage. Both methods appear to produce unbiased parameter estimates and similar false positive rates.

References

Jan 1, 1992·Human Heredity·D C Thomas, V Cortessis
Mar 1, 1972·Behavior Genetics·J K Haseman, R C Elston

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Citations

Dec 30, 2009·Human Genetics·Chih-Chieh WuSanjay Shete
Oct 11, 2005·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Sally W ThurstonDavid C Christiani
Aug 30, 2000·Genetic Epidemiology·S Ghosh, P P Majumder

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