Mapping quantitative trait loci from a single-tail sample of the phenotype distribution including survival data
Mapping quantitative trait loci from a single-tail sample of the phenotype distribution including survival data
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DOI：
10.1534/genetics.107.081299
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发表时间：
2007-12-01
期刊：
影响因子：
3.3
通讯作者：
Hoti, Fabian
中科院分区：
文献类型：
--
作者：
Sillanpaa, Mikko J.;Hoti, Fabian
提出了一种新的有效的贝叶斯数量性状基因座（QTL）定位方法，用于分析表型分布的单尾选择样本。该方法将仅受影响的检验扩展到具有对数正态生存时间或删失/选择性状等数量性状的单尾抽样。该方法的一个很大的好处是，它可以利用多QTL模型，很容易纳入不同的数据设计（实验和远交群体），并可能扩展到上位性模型。在近交系中，该方法利用了亲本交配类型和连锁阶段（单倍型）通过定义已知的事实。在远交群体中，需要两代数据，例如，育种材料中的选择后代和父母之一（公畜）。其思想是在统计上（计算上）为样本中的每个后代生成一个完全互补的、最大不相似的观察结果。然后使用贝叶斯数据增强来对伪观测的可能特质值的空间进行采样。使用模拟数据集和一个真实的数据集油的F-2小鼠感染单核细胞增生李斯特菌后的生存说明了这种方法的好处。
A new effective Bayesian quantitative trait locus (QTL) mapping approach for the analysis of single-tail selected samples of the phenotype distribution is presented. The approach extends the affected-only tests to single-tail sampling with quantitative traits such as the log-normal survival time or censored/selected traits. A great benefit of the approach is that it. enables the utilization of multiple-QTL models, is easy to incorporate into different data designs (experimental and outbred populations), and can potentially be extended to epistatic models. In inbred lines, the method exploits the fact that the parental mating type and the linkage phases (haplotypes) are known by definition. In outbred poplations, two-generation data are needed, for example, selected offspring and one of the parents (the Sires) in breeding material. The idea is to statistically (computationally) generate a fully complementary, maximally dissimilar, observation for each offspring in the sample. Bayesian data augmentation is then used to sample the space of possible trait values for the pseudoobservations. The benefits of the approach are illustrated using simulated data sets and a real data set oil the survival of F-2 mice following infection with Listeria monocytogenes.