Two novel quantitative trait linkage analysis statistics based on the posterior probability of linkage: application to the COGA families.
Two novel quantitative trait linkage analysis statistics based on the posterior probability of linkage: application to the COGA families.
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DOI：
10.1186/1471-2156-6-s1-s121
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发表时间：
2005-12-30
期刊：
影响因子：
2.9
通讯作者：
Vieland VJ
中科院分区：
文献类型：
--
作者：
Bartlett CW;Vieland VJ
在本文中，我们应用两个新的数量性状连锁统计的基础上后验概率的连锁（PPL）的4号染色体从GAW 14 COGA数据集。我们的方法是有利的，因为它们使用完全的可能性，使用完整的表型信息，不假设在人口水平的正态性或需要人口/样本参数估计;和其他形式的PPL一样，它们是专门定制的，以积累连锁证据，无论是支持还是反对连锁，在多组异质数据。第一个统计量使用来自系谱的所有数量性状（QT）信息（QT-后验连锁概率，PPL）;我们将QT-PPL应用于性状ecb 21（静息脑电图）。第二个统计量允许通过阈值模型（QTT-PPL）将二分性状数据同时纳入QT分析;我们将QTT-PPL应用于ecb 21和ALDX 1的合并数据。GABRB 1和FABP 2的QT-PPL分别为96%和18%，而QTT-PPL分别为4%和2%。相比之下，方差分量（VC）方法，如在SOLAR中实施的，在GABRB 1和FABP 2分别得到2.05和2.21的多点VC LOD评分;没有其他VC LOD大于2。GABARB 1的QTT-PPL仅为4%，这可能表明潜在的ecb 21基因也不会引起ALDX 1，尽管数据的特征使该结果的解释复杂化。
In this paper we apply two novel quantitative trait linkage statistics based on the posterior probability of linkage (PPL) to chromosome 4 from the GAW 14 COGA dataset. Our approaches are advantageous since they use the full likelihood, use full phenotypic information, do not assume normality at the population level or require population/sample parameter estimates; and like other forms of the PPL, they are specifically tailored to accumulate linkage evidence, either for or against linkage, across multiple sets of heterogeneous data. The first statistic uses all quantitative trait (QT) information from the pedigree (QT-posterior probability of linkage, PPL); we applied the QT-PPL to the trait ecb21 (resting electroencephalogram). The second statistic allows simultaneous incorporation of dichotomous trait data into the QT analysis via a threshold model (QTT-PPL); we applied the QTT-PPL to combined data on ecb21 and ALDX1. We obtained a QT-PPL of 96% at GABRB1 and a QT-PPL of 18% at FABP2 while the QTT-PPL was 4% and 2% at the same two loci, respectively. By comparison, the variance-components (VC) method, as implemented in SOLAR, yielded multipoint VC LOD scores of 2.05 and 2.21 at GABRB1 and FABP2, respectively; no other VC LODs were greater than 2. The QTT-PPL was only 4% at GABARB1, which might suggest that the underlying ecb21 gene does not also cause ALDX1, although features of the data complicate interpretation of this result.