A PLSPM-based test statistic for detecting gene-gene co-association in genome-wide association study with case-control design.
A PLSPM-based test statistic for detecting gene-gene co-association in genome-wide association study with case-control design.
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DOI：
10.1371/journal.pone.0062129
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Xue F
中科院分区：
文献类型：
--
作者：
Zhang X;Yang X;Yuan Z;Liu Y;Li F;Peng B;Zhu D;Zhao J;Xue F
在全基因组关联数据分析中，任何通路上的两个基因、分别位于两个连锁基因区域的两个snp或一个基因内分别位于两个连锁外显子的两个snp往往是相互相关的。因此，我们提出了基因-基因共关联的概念，它不仅是指传统的在几乎独立的条件下相互作用所产生的影响，而且是指两个基因之间的相关性。在此基础上，构建了一种基于偏最小二乘路径模型（PLSPM）的基因-基因共关联检测统计量。通过仿真，突出了三种不同的协同关联类型下传统交互与协同关联之间的关系。仿真和实际数据分析表明，基于plspm的统计量比基于单一snp的logistic模型、基于pca的logistic模型和其他基于基因的方法具有更好的性能。
For genome-wide association data analysis, two genes in any pathway, two SNPs in the two linked gene regions respectively or in the two linked exons respectively within one gene are often correlated with each other. We therefore proposed the concept of gene-gene co-association, which refers to the effects not only due to the traditional interaction under nearly independent condition but the correlation between two genes. Furthermore, we constructed a novel statistic for detecting gene-gene co-association based on Partial Least Squares Path Modeling (PLSPM). Through simulation, the relationship between traditional interaction and co-association was highlighted under three different types of co-association. Both simulation and real data analysis demonstrated that the proposed PLSPM-based statistic has better performance than single SNP-based logistic model, PCA-based logistic model, and other gene-based methods.
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影响因子：
4.5
作者：
Ma L;Brautbar A;Boerwinkle E;Sing CF;Clark AG;Keinan A
通讯作者：
Keinan A
影响因子：
4.4
作者：
Han B;Chen XW
通讯作者：
Chen XW
影响因子：
5
作者：
Bush, W. S.;McCauley, J. L.;DeJager, P. L.;Dudek, S. M.;Hafler, D. A.;Gibson, R. A.;Matthews, P. M.;Kappos, L.;Naegelin, Y.;Polman, C. H.;Hauser, S. L.;Oksenberg, J.;Haines, J. L.;Ritchie, M. D.
通讯作者：
Ritchie, M. D.
影响因子：
64.8
作者：
通讯作者：
--
DOI：
10.3724/sp.j.1005.2011.00239
发表时间：
2011-03-01
期刊：
Yi chuan = Hereditas
影响因子：
--
作者：
Chen, Min-Zhi;Cheng, Guang-Hui;Liu, Qi-Ji
通讯作者：
Liu, Qi-Ji