On the Bayesness, minimaxity and admissibility of point estimators of allelic frequencies

DOI10.1016/J.JTBI.2015.07.031zbMATH Open1343.92015arXiv1501.03465OpenAlexW1956358013WikidataQ50867726 ScholiaQ50867726MaRDI QIDQ739422FDOQ739422

Authors: Carlos Alberto Martínez, Kshitij Khare, Mauricio Elzo 

Publication date: 18 August 2016

Published in: Journal of Theoretical Biology (Search for Journal in Brave)

Abstract: In this paper, decision theory was used to derive Bayes and minimax decision rules to estimate allelic frequencies and to explore their admissibility. Decision rules with uniformly smallest risk usually do not exist and one approach to solve this problem is to use the Bayes principle and the minimax principle to find decision rules satisfying some general optimality criterion based on their risk functions. Two cases were considered, the simpler case of biallelic loci and the more complex case of multiallelic loci. For each locus, the sampling model was a multinomial distribution and the prior was a Beta (biallelic case) or a Dirichlet (multiallelic case) distribution. Three loss functions were considered: squared error loss (SEL), Kulback-Leibler loss (KLL) and quadratic error loss (QEL). Bayes estimators were derived under these three loss functions and were subsequently used to find minimax estimators using results from decision theory. The Bayes estimators obtained from SEL and KLL turned out to be the same. Under certain conditions, the Bayes estimator derived from QEL led to an admissible minimax estimator (which was also equal to the maximum likelihood estimator). The SEL also allowed finding admissible minimax estimators. Some estimators had uniformly smaller variance than the MLE and under suitable conditions the remaining estimators also satisfied this property. In addition to their statistical properties, the estimators derived here allow variation in allelic frequencies, which is closer to the reality of finite populations exposed to evolutionary forces.

Full work available at URL: https://arxiv.org/abs/1501.03465

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zbMATH Keywords

decision theoryBayes estimatorsadmissible estimatorsminimax estimatorsaverage risk

Mathematics Subject Classification ID

Bayesian inference (62F15) Applications of statistics to biology and medical sciences; meta analysis (62P10) General biostatistics (92B15) Genetics and epigenetics (92D10)

Cites Work

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Cited In (5)

• Improving population-specific allele frequency estimates by adapting supplemental data: an empirical Bayes approach
• Bayesian and robust Bayesian analysis in a general setting
• Joint genome-wide prediction in several populations accounting for randomness of genotypes: a hierarchical Bayes approach. I: Multivariate Gaussian priors for marker effects and derivation of the joint probability mass function of genotypes
• Estimating the frequency of the oldest allele: a bayesian approach
• Allelic frequency estimation in presence of uncertain priors

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