Quantitative trait loci analysis using the false discovery rate
Quantitative trait loci analysis using the false discovery rate
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DOI：
10.1534/genetics.104.036699
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发表时间：
2005-10-01
期刊：
影响因子：
3.3
通讯作者：
Yekutieli, D
中科院分区：
文献类型：
--
作者：
Benjamini, Y;Yekutieli, D
错误发现率控制已成为任何具有非常大的多重性问题的研究中的重要工具。错误发现率控制程序也被发现在 QTL 分析中非常有效，可确保可重复的结果，几乎没有错误发现的连锁，并提供增强的发现 QTL 的能力，尽管它们的接受速度比微阵列分析慢。部分原因是因为将错误发现率应用于 QTL 定位的方法学方面尚未得到很好的发展。我们这项工作的目的是为QTL定位中错误发现率的使用奠定坚实的基础。我们回顾了错误发现率标准、FDR 的适当解释以及统计和遗传学文献中出现的 FDR 的替代表述。我们讨论 FDR 方法的重要特征，这些特征源自 FDR 理论和方法的新发展，认为它在连锁分析中特别有用。我们回顾了错误发现率控制程序（BH、重采样程序和自适应两阶段程序），并讨论了这些程序在单性状和多性状 QTL 定位中的有效性。最后，我们认为，控制错误发现率对于建议、表明 QTL 的重要性、确认 QTL 及其使用指南具有重要作用。
False discovery rate control has become an essential tool in any study that has a very large multiplicity problem. False discovery rate-controlling procedures have also been found to be very effective in QTL analysis, ensuring reproducible results with few falsely discovered linkages and offering increased power to discover QTL, although their acceptance has been slower than in microarray analysis, for example. The reason is partly because the methodological aspects of applying the false discovery rate to QTL mapping are not well developed. Our aim in this work is to lay a solid foundation for the use of the false discovery rate in QTL mapping. We review the false discovery rate criterion, the appropriate interpretation of the FDR, and alternative formulations of the FDR that appeared in the statistical and genetics literature. We discuss important features of the FDR approach, sortie stemming from new developments in FDR theory and methodology, which deem it especially useful in linkage analysis. We review false discovery rate-controlling procedures-the BH, the resampling procedure, and the adaptive two-stage procedure-and discuss the validity of these procedures in single- and multiple-trait QTL mapping. Finally we argue that the control of the false discovery rate has an important role in suggesting, indicating the significance of, and confirming QTL and present guidelines for its use.