Mathematical Properties of Linkage Disequilibrium Statistics Defined by Normalization of the Coefficient D = pAB - pApB.

IF 1.1 4区生物学 Q4 GENETICS & HEREDITY Human Heredity Pub Date : 2019-01-01 Epub Date: 2020-02-11 DOI:10.1159/000504171

Jonathan T L Kang, Noah A Rosenberg

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引用次数: 6

Abstract

Background: Many statistics for measuring linkage disequilibrium (LD) take the form of a normalization of the LD coefficient D. Different normalizations produce statistics with different ranges, interpretations, and arguments favoring their use.

Methods: Here, to compare the mathematical properties of these normalizations, we consider 5 of these normalized statistics, describing their upper bounds, the mean values of their maxima over the set of possible allele frequency pairs, and the size of the allele frequency regions accessible given specified values of the statistics.

Results: We produce detailed characterizations of these properties for the statistics d and ρ, analogous to computations previously performed for r2. We examine the relationships among the statistics, uncovering conditions under which some of them have close connections.

Conclusion: The results contribute insight into LD measurement, particularly the understanding of differences in the features of different LD measures when computed on the same data.

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由系数D = pAB - pApB归一化定义的连杆不平衡统计量的数学性质。

背景:许多用于测量链接不平衡(LD)的统计数据采用LD系数d的规范化形式。不同的规范化产生具有不同范围、解释和支持其使用的论据的统计数据。方法:在这里，为了比较这些归一化的数学性质，我们考虑了这些归一化统计量中的5个，描述了它们的上界，它们在可能的等位基因频率对集合上的最大值的平均值，以及给定特定统计值的等位基因频率区域的大小。结果:我们对统计量d和ρ的这些性质进行了详细的描述，类似于之前对r2进行的计算。我们考察了统计数据之间的关系，揭示了其中一些统计数据具有密切联系的条件。结论:该结果有助于深入了解LD测量，特别是理解在相同数据上计算不同LD测量时特征的差异。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Human Heredity 生物-遗传学

CiteScore

2.50

自引率

0.00%

发文量

审稿时长

>12 weeks

期刊介绍： Gathering original research reports and short communications from all over the world, ''Human Heredity'' is devoted to methodological and applied research on the genetics of human populations, association and linkage analysis, genetic mechanisms of disease, and new methods for statistical genetics, for example, analysis of rare variants and results from next generation sequencing. The value of this information to many branches of medicine is shown by the number of citations the journal receives in fields ranging from immunology and hematology to epidemiology and public health planning, and the fact that at least 50% of all ''Human Heredity'' papers are still cited more than 8 years after publication (according to ISI Journal Citation Reports). Special issues on methodological topics (such as ‘Consanguinity and Genomics’ in 2014; ‘Analyzing Rare Variants in Complex Diseases’ in 2012) or reviews of advances in particular fields (‘Genetic Diversity in European Populations: Evolutionary Evidence and Medical Implications’ in 2014; ‘Genes and the Environment in Obesity’ in 2013) are published every year. Renowned experts in the field are invited to contribute to these special issues.