An expectation–maximization algorithm for the Lasso estimation of quantitative trait locus effects
نویسندگان
چکیده
منابع مشابه
Bayesian LASSO for quantitative trait loci mapping.
The mapping of quantitative trait loci (QTL) is to identify molecular markers or genomic loci that influence the variation of complex traits. The problem is complicated by the facts that QTL data usually contain a large number of markers across the entire genome and most of them have little or no effect on the phenotype. In this article, we propose several Bayesian hierarchical models for mappi...
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Bayesian shrinkage analysis is arguably the state-of-the-art technique for large-scale multiple quantitative trait locus (QTL) mapping. However, when the shrinkage model does not involve indicator variables for marker inclusion, QTL detection remains heavily dependent on significance thresholds derived from phenotype permutation under the null hypothesis of no phenotype-to-genotype association....
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The shrinkage estimate of a quantitative trait locus (QTL) effect is the posterior mean of the QTL effect when a normal prior distribution is assigned to the QTL. This note gives the derivation of the shrinkage estimate under the multivariate linear model. An important lemma regarding the posterior mean of a normal likelihood combined with a normal prior is introduced. The lemma is then used to...
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Alcoholism is a quantitative disorder that is caused by the combined influences of numerous genes (i.e., quantitative trait loci [QTLs]) and environmental factors. To identify QTLs for alcoholism, researchers compare subject groups (e.g., inbred mouse strains) that differ in both their genetic makeup (i.e., genotype) and alcohol-related trait (e.g., sensitivity to certain alcohol effects). Usin...
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Bayesian hierarchical shrinkage methods have been widely used for quantitative trait locus mapping. From the computational perspective, the application of the Markov chain Monte Carlo (MCMC) method is not optimal for high-dimensional problems such as the ones arising in epistatic analysis. Maximum a posteriori (MAP) estimation can be a faster alternative, but it usually produces only point esti...
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ژورنال
عنوان ژورنال: Heredity
سال: 2010
ISSN: 0018-067X,1365-2540
DOI: 10.1038/hdy.2009.180