Prediction of multilocus identity-by-descent

Hernandez Sanchez, Julio & Hill, W.G. (2007) Prediction of multilocus identity-by-descent. Genetics, 176(4), pp. 2307-2315.

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Previous studies have enabled exact prediction of probabilities of identity-by-descent (IBD) in randommating populations for a few loci (up to four or so), with extension to more using approximate regression methods. Here we present a precise predictor of multiple-locus IBD using simple formulas based on exact results for two loci. In particular, the probability of non-IBD X ABC at each of ordered loci A, B, and C can be well approximated by XABC = XABXBC/XB and generalizes to X123. . .k = X12X23. . .Xk-1,k/ Xk-2, where X is the probability of non-IBD at each locus. Predictions from this chain rule are very precise with population bottlenecks and migration, but are rather poorer in the presence of mutation. From these coefficients, the probabilities of multilocus IBD and non-IBD can also be computed for genomic regions as functions of population size, time, and map distances. An approximate but simple recurrence formula is also developed, which generally is less accurate than the chain rule but is more robust with mutation. Used together with the chain rule it leads to explicit equations for non-IBD in a region. The results can be applied to detection of quantitative trait loci (QTL) by computing the probability of IBD at candidate loci in terms of identity-by-state at neighboring markers.

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9 citations in Scopus
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10 citations in Web of Science®

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ID Code: 58639
Item Type: Journal Article
Refereed: Yes
Additional Information: Articles free to read on journal website after 12 months
Keywords: gene identification; gene locus; gene mutation; genome; human; identity; mathematical genetics; mathematical model; migration; population size; prediction; probability; quantitative trait locus , Animals; Genetics, Population; Inbreeding; Models, Genetic; Models, Statistical; Mutation; Probability; Quantitative Trait Loci; Regression Analysis
DOI: 10.1534/genetics.107.074344
ISSN: 00166731
Subjects: Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > GENETICS (060400) > Quantitative Genetics (incl. Disease and Trait Mapping Genetics (060412)
Divisions: Current > Institutes > Institute of Health and Biomedical Innovation
Deposited On: 26 Mar 2013 05:29
Last Modified: 29 Jan 2015 04:41

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