Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data

Paul C. D. Johnson and Daniel T. Haydon

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Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data

机译：在没有参考数据的情况下，微卫星基因型的等位基因缺失和错误等位基因错误率的最大似然估计

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The importance of quantifying and accounting for stochastic genotyping errors when analyzing microsatellitendata is increasingly being recognized. This awareness is motivating the development of datananalysis methods that not only take errors into consideration but also recognize the difference betweenntwo distinct classes of error, allelic dropout and false alleles. Currently methods to estimate rates of allelicndropout and false alleles depend upon the availability of error-free reference genotypes or reliable pedigreendata, which are often not available. We have developed a maximum-likelihood-based method fornestimating these error rates from a single replication of a sample of genotypes. Simulations show it to benboth accurate and robust to modest violations of its underlying assumptions. We have applied the methodnto estimating error rates in two microsatellite data sets. It is implemented in a computer program, Pedant,nwhich estimates allelic dropout and false allele error rates with 95% confidence regions from microsatellitengenotype data and performs power analysis. Pedant is freely available at http://www.stats.gla.ac.nuk/u0002paulj/pedant.html.

机译：在分析微卫星数据时，量化和考虑随机基因分型错误的重要性日益得到认可。这种认识正在激发数据分析方法的发展，这些方法不仅考虑错误，而且认识到两种不同类型的错误，等位基因缺失和假等位基因之间的差异。当前估计等位基因缺失和假等位基因发生率的方法取决于无错参考基因型或可靠的pedigreendata的可用性，而后者通常是不可用的。我们已经开发了一种基于最大似然法的方法，可以从基因型样本的一次复制中估计这些错误率。仿真表明，它对于适度违反其基本假设具有准确性和鲁棒性。我们已经应用了methodnto估计两个微卫星数据集中的错误率。它在计算机程序Pedant中实现，该程序从微卫星基因型数据中估计具有95％置信区的等位基因缺失和错误等位基因错误率，并进行功效分析。 Pedant可从http：//www.stats.gla.ac.nuk/u0002paulj/pedant.html免费获得。

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《Genetics》 |2007年第2期|p.827-842|共16页
作者
Paul C. D. Johnson and Daniel T. Haydon;
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作者单位

Division of Environmental and Evolutionary Biology, Institute of Biomedical and Life Sciences, University of Glasgow,Glasgow G12 8QQ , United KingdomManuscript received August 11, 2006Accepted for publication December 5, 2006;

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正文语种 eng
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Microsatellite Genotypes;

机译：微卫星基因型;

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1. Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data [J] . Daniel T. Haydon, Paul C. D. Johnson Genetics: A Periodical Record of Investigations Bearing on Heredity and Variation . 2007,第2期

机译：在没有参考数据的情况下，微卫星基因型的等位基因缺失和错误等位基因错误率的最大似然估计
2. A Maximum-Likelihood Method to Correct for Allelic Dropout in Microsatellite Data with No Replicate Genotypes [J] . Wang Chaolong, Schroeder Kari B., RosenbergO Noah A. Genetics: A Periodical Record of Investigations Bearing on Heredity and Variation . 2012,第2期

机译：修正无重复基因型微卫星数据中等位基因缺失的最大似然方法
3. A Maximum-Likelihood Method to Correct for Allelic Dropout in Microsatellite Data with No Replicate Genotypes [J] . Chaolong Wang, Kari B. Schroeder, Noah A. Rosenberg Genetics: A Periodical Record of Investigations Bearing on Heredity and Variation . 2012,第2期

机译：修正无重复基因型微卫星数据中等位基因缺失的最大似然方法
4. Bit error rate estimation in UMTS in the absence of an amplitude reference [C] . Baker, M.J.P., Moulsley, Personal, Indoor and Mobile Radio Communications, 2005. PIMRC 2005. IEEE 16th International Symposium on . 2005

机译：在没有幅度参考的情况下，UMTS中的误码率估计
5. Likelihood ratio tests for association with multiple disease susceptibility alleles, genotyping errors, or missing parental data. [D] . Morris, Richard Wayne. 2003

机译：与多个疾病易感性等位基因，基因分型错误或父母数据缺失相关的可能性比测试。
6. Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data [O] . Paul C. D. Johnson, Daniel T. Haydon 2007

机译：在没有参考数据的情况下微卫星基因型的等位基因缺失和错误等位基因错误率的最大似然估计
7. Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data [O] . Johnson, Paul C. D., Haydon, Daniel T. 2007

机译：在没有参考数据的情况下，微卫星基因型的等位基因缺失和错误等位基因错误率的最大似然估计
8. Study of False-Positive and False-Negative Error Rates in Cartridge Case Comparisons. [R] . Baldwin, D. P., Bajic, S. J., Morris, M., 2014

机译：弹药箱比较中假阳性和假阴性误差率的研究。

Maximum-Likelihood Estimation of Allelic Dropout and False Allele Error Rates From Microsatellite Genotypes in the Absence of Reference Data

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