Originally published as Genetics Published Articles Ahead of Print on August 5, 2005.

Genetics, Vol. 171, 1331-1339, November 2005, Copyright © 2005
doi:10.1534/genetics.105.044545

Bias and Precision in QST Estimates: Problems and Some Solutions

R. B. O'Hara*,1 and J. Merilä{dagger}

* Department of Mathematics and Statistics, University of Helsinki, FIN-00014 Helsinki, Finland and {dagger} Ecological Genetics Research Unit, Department of Biological and Environmental Sciences, University of Helsinki, FIN-00014 Helsinki, Finland

1 Corresponding author: Department of Mathematics and Statistics, P.O. Box 68 (Gustaf Hällströmin katu 2b), University of Helsinki, FIN-00014 Helsinki, Finland.
E-mail: bob.ohara{at}helsinki.fi

Comparison of population differentiation in neutral marker genes and in genes coding quantitative traits by means of FST and QST indexes has become commonplace practice. While the properties and estimation of FST have been the subject of much interest, little is known about the precision and possible bias in QST estimates. Using both simulated and real data, we investigated the precision and bias in QST estimates and various methods of estimating the precision. We found that precision of QST estimates for typical data sets (i.e., with <20 populations) was poor. Of the methods for estimating the precision, a simulation method, a parametric bootstrap, and the Bayesian approach returned the most precise estimates of the confidence intervals.




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