Inbreeding Coefficient Estimation with Dense SNP Data: Comparison of Strategies and Application to HapMap III | Zendy

Steven Gazal | Zendy; Mourad Sahbatou | Zendy; Hervé Perdry | Zendy; Sébastien Letort | Zendy; Emmanuelle Génin | Zendy; AnneLouise Leutenegger | Zendy

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Inbreeding Coefficient Estimation with Dense SNP Data: Comparison of Strategies and Application to HapMap III

Author(s) -

Steven Gazal,

Mourad Sahbatou,

Hervé Perdry,

Sébastien Letort,

Emmanuelle Génin,

AnneLouise Leutenegger

Publication year - 2014

Publication title -

human heredity

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.423

H-Index - 62

eISSN - 1423-0062

pISSN - 0001-5652

DOI - 10.1159/000358224

Subject(s) - inbreeding , identity by descent , statistics , international hapmap project , biology , runs of homozygosity , estimator , linkage disequilibrium , genetics , locus (genetics) , mathematics , allele , single nucleotide polymorphism , population , haplotype , demography , sociology , genotype , gene

If the parents of an individual are related, it is possible for the individual to have received at 1 locus 2 identical-by-descent alleles that are copies of a single allele carried by the parents' common ancestor. The inbreeding coefficient measures the probability of this event and increases with increasing relatedness between the parents. It is traditionally computed from the observed inbreeding loops in the genealogies and its accuracy thus depends on the depth and reliability of the genealogies. With the availability of genome-wide genetic data, it has become possible to compute a genome-based inbreeding coefficient f, and different methods have been developed to estimate f and identify inbred individuals in a sample from the observed patterns of homozygosity at markers.

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