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How to deal with ge...
How to deal with genotype uncertainty in variance component quantitative trait loci analyses
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- Rönnegård, Lars (författare)
- Högskolan Dalarna,Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,Dalarna University,Statistik
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- Carlborg, Örjan (författare)
- Uppsala universitet,Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för husdjursgenetik (HGEN),Department of Animal Breeding and Genetics,Uppsala University,Beräknings- och systembiologi,SLU
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- Shen, Xia (författare)
- Högskolan Dalarna,Uppsala universitet,Beräknings- och systembiologi,Statistik
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(creator_code:org_t)
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- Cambridge University Press, 2011
- 2011
- Engelska.
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Ingår i: Genetics Research. - : Cambridge University Press. - 0016-6723 .- 1469-5073. ; 93, s. 333-342
- Relaterad länk:
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https://res.slu.se/i...
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https://doi.org/10.1...
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https://urn.kb.se/re...
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Abstract
Ämnesord
Stäng
- Dealing with genotype uncertainty is an ongoing issue in genetic analyses of complex traits. Here we consider genotype uncertainty in quantitative trait loci (QTL) analyses for large crosses in variance component models, where the genetic information is included in identity-by-descent (IBD) matrices. An IBD matrix is one realization from a distribution of potential IBD matrices given available marker information. In QTL analyses, its expectation is normally used resulting in potentially reduced accuracy and loss of power. Previously, IBD distributions have been included in models for small human full-sib families. We develop an Expectation-Maximization (EM) algorithm for estimating a full model based on Monte Carlo imputation for applications in large animal pedigrees. Our simulations show that the bias of variance component estimates using traditional expected IBD matrix can be adjusted by accounting for the distribution and that the calculations are computationally feasible for large pedigrees.
Ämnesord
- LANTBRUKSVETENSKAPER -- Husdjursvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Animal and Dairy Sience (hsv//eng)
- LANTBRUKSVETENSKAPER -- Veterinärmedicin (hsv//swe)
- AGRICULTURAL SCIENCES -- Veterinary Science (hsv//eng)
- NATURVETENSKAP -- Matematik -- Sannolikhetsteori och statistik (hsv//swe)
- NATURAL SCIENCES -- Mathematics -- Probability Theory and Statistics (hsv//eng)
Nyckelord
- Statistisk modellering är grunden till en ökad förståelse inom genetik!
Publikations- och innehållstyp
- ref (ämneskategori)
- art (ämneskategori)
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