A Generalized Kruskal-Wallis Test Incorporating Group Uncertainty with Application to Genetic Association Studies
A Generalized Kruskal-Wallis Test Incorporating Group Uncertainty with Application to Genetic Association Studies
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DOI：
10.1111/biom.12006
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发表时间：
2013-06-01
期刊：
影响因子：
1.9
通讯作者：
Sun, Lei
中科院分区：
文献类型：
--
作者：
Acar, Elif F.;Sun, Lei
受snp与基因型不确定性的遗传关联研究的推动，我们提出了一种概括的Kruskal-Wallis检验，在比较k个样本时纳入了群体不确定性。扩展检验统计量基于概率加权秩和，在零假设下服从k- 1自由度的渐近卡方分布。仿真研究证实了该方法在有限样本下的有效性和鲁棒性。应用于1型糖尿病并发症的全基因组关联研究进一步证明了这种广义Kruskal-Wallis检验在群体不确定性研究中的实用性。该方法已作为开放资源R程序GKW实现。
Motivated by genetic association studies of SNPs with genotype uncertainty, we propose a generalization of the Kruskal-Wallis test that incorporates group uncertainty when comparing k samples. The extended test statistic is based on probability-weighted rank-sums and follows an asymptotic chi-square distribution with k - 1 degrees of freedom under the null hypothesis. Simulation studies confirm the validity and robustness of the proposed test in finite samples. Application to a genome-wide association study of type 1 diabetic complications further demonstrates the utilities of this generalized Kruskal-Wallis test for studies with group uncertainty. The method has been implemented as an open-resource R program, GKW.