Reference : Use of ancestral haplotypes in Genome Wide Association Studies
Parts of books : Contribution to collective works
Life sciences : Genetics & genetic processes
http://hdl.handle.net/2268/126541
Use of ancestral haplotypes in Genome Wide Association Studies
English
Druet, Tom mailto [Université de Liège - ULg > Département de productions animales > GIGA-R : Génomique animale >]
Farnir, Frédéric mailto [Université de Liège - ULg > Département de productions animales > Biostatistiques et bioinformatique appliquées aux sc. vétér. >]
Jun-2013
Genome-Wide Association Studies and Genomic Prediction
Gondro, Cedric
van der Werf, Julius
Hayes, Ben
Springer
Methods in Molecular Biology, vol 1019
347-380
No
[en] Association studies ; QTL mapping ; Haplotypes ; Hidden Markov models ; Ancestral haplotypes
[en] We herein present a haplotype-based method to perform genome-wide association studies. The method relies on hidden Markov models to describe haplotypes from a population as a mosaic of a set of ancestral haplotypes. For a given position in the genome, haplotypes deriving from the same ancestral haplotype are also likely to carry the same risk alleles. Therefore, the model can be used in several applications such as haplotype reconstruction, imputation, association studies or genomic predictions. We illustrate then the model with two applications: the fine-mapping of a QTL affecting live weight in cattle and association studies in a stratified cattle population. Both applications show the potential of the method and the high linkage disequilibrium between ancestral haplotypes and causative variants.
http://hdl.handle.net/2268/126541

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