Skip to Main content Skip to Navigation
Journal articles

Prediction of identity by descent probabilities from marker-haplotypes

Abstract : The prediction of identity by descent (IBD) probabilities is essential for all methods that map quantitative trait loci (QTL). The IBD probabilities may be predicted from marker genotypes and/or pedigree information. Here, a method is presented that predicts IBD probabilities at a given chromosomal location given data on a haplotype of markers spanning that position. The method is based on a simplification of the coalescence process, and assumes that the number of generations since the base population and effective population size is known, although effective size may be estimated from the data. The probability that two gametes are IBD at a particular locus increases as the number of markers surrounding the locus with identical alleles increases. This effect is more pronounced when effective population size is high. Hence as effective population size increases, the IBD probabilities become more sensitive to the marker data which should favour finer scale mapping of the QTL. The IBD probability prediction method was developed for the situation where the pedigree of the animals was unknown (i.e. all information came from the marker genotypes), and the situation where, say $T$, generations of unknown pedigree are followed by some generations where pedigree and marker genotypes are known.
Document type :
Journal articles
Complete list of metadata

Cited literature [24 references]  Display  Hide  Download

https://hal.archives-ouvertes.fr/hal-00894392
Contributor : Import Revues Inra <>
Submitted on : Monday, January 1, 2001 - 10:00:00 AM
Last modification on : Monday, February 15, 2021 - 11:00:23 AM
Long-term archiving on: : Wednesday, November 23, 2016 - 1:20:49 PM

File

hal-00894392.pdf
Explicit agreement for this submission

Identifiers

Citation

Theo Meuwissen, Mike Goddard. Prediction of identity by descent probabilities from marker-haplotypes. Genetics Selection Evolution, BioMed Central, 2001, 33 (6), pp.605-634. ⟨10.1051/gse:2001134⟩. ⟨hal-00894392⟩

Share

Metrics

Record views

117

Files downloads

342