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Title: Detection of recombination events, haplotype reconstruction and imputation of sires using half-sib SNP genotypes
Contributor(s): Ferdosi, Mohammad  (author)orcid ; Kinghorn, Brian  (author); Gondro, Cedric  (author)orcid ; Van Der Werf, Julius H  (author)orcid 
Publication Date: 2014
Open Access: Yes
DOI: 10.1186/1297-9686-46-11Open Access Link
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Abstract: Background: Identifying recombination events and the chromosomal segments that constitute a gamete is useful for a number of applications in genomic analyses. In livestock, genotypic data are commonly available for half-sib families. We propose a straightforward but computationally efficient method to use single nucleotide polymorphism marker genotypes on half-sibs to reconstruct the recombination and segregation events that occurred during meiosis in a sire to form the haplotypes observed in its offspring. These meiosis events determine a block structure in paternal haplotypes of the progeny and this can be used to phase the genotypes of individuals in single half-sib families, to impute haplotypes of the sire if they are not genotyped or to impute the paternal strand of the offspring's sequence based on sequence data of the sire.
Publication Type: Journal Article
Source of Publication: Genetics Selection Evolution, v.46, p. 1-14
Publisher: BioMed Central Ltd
Place of Publication: London, United Kingdom
ISSN: 0999-193X
Field of Research (FOR): 070202 Animal Growth and Development
Socio-Economic Outcome Codes: 970106 Expanding Knowledge in the Biological Sciences
Peer Reviewed: Yes
HERDC Category Description: C1 Refereed Article in a Scholarly Journal
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Appears in Collections:Animal Genetics and Breeding Unit (AGBU)
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