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The potential of probabilistic graphical models in linkage map construction.

ABSTRACT:

Key message

Probabilistic graphical models show great potential for robust and reliable construction of linkage maps. We show how to use probabilistic graphical models to construct high-quality linkage maps in the face of data perturbations caused by genotyping errors and reciprocal translocations. It has been shown that linkage map construction can be hampered by the presence of genotyping errors and chromosomal rearrangements such as inversions and translocations. Here, we report a novel method for linkage map construction using probabilistic graphical models. The method is proven, both theoretically and practically, to be effective in filtering out markers that contain genotyping errors. In particular, it carries out marker filtering and ordering simultaneously, and is therefore superior to the standard post hoc filtering using nearest-neighbour stress. Furthermore, we demonstrate empirically that the proposed method offers a promising solution to linkage map construction in the case of a reciprocal translocation.

SUBMITTER: Wang H

PROVIDER: S-EPMC5263214 | biostudies-literature | 2017 Feb

REPOSITORIES: biostudies-literature

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The potential of probabilistic graphical models in linkage map construction.

Wang Huange H van Eeuwijk Fred A FA Jansen Johannes J

TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 20161205 2

<h4>Key message</h4>Probabilistic graphical models show great potential for robust and reliable construction of linkage maps. We show how to use probabilistic graphical models to construct high-quality linkage maps in the face of data perturbations caused by genotyping errors and reciprocal translocations. It has been shown that linkage map construction can be hampered by the presence of genotyping errors and chromosomal rearrangements such as inversions and translocations. Here, we report a nov ...[more]

PMID: 27921120

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Dataset Information

The potential of probabilistic graphical models in linkage map construction.

Key message

Publications

The potential of probabilistic graphical models in linkage map construction.

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