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A comparison between methods for linkage disequilibrium fine mapping of quantitative trait loci

Published online by Cambridge University Press:  10 March 2004

JIHAD M. ABDALLAH ,
BRIGITTE MANGIN ,
BRUNO GOFFINET ,
CHRISTINE CIERCO-AYROLLES  and
MIGUEL PÉREZ-ENCISO
JIHAD M. ABDALLAH
Affiliation:
Station d'amélioration génétique des animaux, Institut national de la recherche agronomique, Auzeville BP 27, 31326 Castanet-Tolosan Cedex, France
BRIGITTE MANGIN
Affiliation:
Unité de biométrie et intelligence artificielle, Institut national de la recherche agronomique, Auzeville BP 27, 31326 Castanet-Tolosan Cedex, France
BRUNO GOFFINET
Affiliation:
Unité de biométrie et intelligence artificielle, Institut national de la recherche agronomique, Auzeville BP 27, 31326 Castanet-Tolosan Cedex, France
CHRISTINE CIERCO-AYROLLES
Affiliation:
Unité de biométrie et intelligence artificielle, Institut national de la recherche agronomique, Auzeville BP 27, 31326 Castanet-Tolosan Cedex, France
MIGUEL PÉREZ-ENCISO
Affiliation:
Station d'amélioration génétique des animaux, Institut national de la recherche agronomique, Auzeville BP 27, 31326 Castanet-Tolosan Cedex, France

Abstract

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We present a maximum likelihood method for mapping quantitative trait loci that uses linkage disequilibrium information from single and multiple markers. We made paired comparisons between analyses using a single marker, two markers and six markers. We also compared the method to single marker regression analysis under several scenarios using simulated data. In general, our method outperformed regression (smaller mean square error and confidence intervals of location estimate) for quantitative trait loci with dominance effects. In addition, the method provides estimates of the frequency and additive and dominance effects of the quantitative trait locus.

Type
Research Article
Information
Genetics Research , Volume 83 , Issue 1 , February 2004 , pp. 41 - 47
Copyright
© 2004 Cambridge University Press