超高维变量选择及其在正常衰老研究中的应用：DNA甲基化与代谢综合征
Ultra-high dimensional variable selection with application to normative aging study: DNA methylation and metabolic syndrome.
作者信息
Yoon Grace, Zheng Yinan, Zhang Zhou, Zhang Haixiang, Gao Tao, Joyce Brian, Zhang Wei, Guan Weihua, Baccarelli Andrea A, Jiang Wenxin, Schwartz Joel, Vokonas Pantel S, Hou Lifang, Liu Lei
机构信息
Department of Statistics, Northwestern University, 2006 Sheridan Road, Evanston, 60201, USA.
Department of Preventive Medicine, Northwestern University, 680 N Lake Shore Drive, Chicago, 60611, USA.
出版信息
BMC Bioinformatics. 2017 Mar 7;18(1):156. doi: 10.1186/s12859-017-1568-1.
BACKGROUND
Metabolic syndrome has become a major public health challenge worldwide. The association between metabolic syndrome and DNA methylation is of great research interest.
RESULTS
We constructed a binomial model to investigate the association between a metabolic syndrome index and DNA methylation in the Normative Aging Study. We applied the Iterative Sure Independence Screening (ISIS) method with elastic net penalty to DNA methylation levels at 484,548 CpG markers from 659 human subjects, and demonstrated that the screening step in ISIS can significantly improve the performance of the elastic net.
CONCLUSION
The proposed method identifies four CpGs which can be mapped to two biologically relevant and functional genes. Identification of significant CpG markers may potentially have practical implications for disease prevention and treatment.
背景
代谢综合征已成为全球主要的公共卫生挑战。代谢综合征与DNA甲基化之间的关联具有极大的研究价值。
结果
在规范衰老研究中，我们构建了一个二项式模型来研究代谢综合征指数与DNA甲基化之间的关联。我们将带有弹性网络惩罚的迭代确定独立筛选（ISIS）方法应用于659名人类受试者的484,548个CpG标记的DNA甲基化水平，并证明ISIS中的筛选步骤可显著提高弹性网络的性能。
结论
所提出的方法识别出四个可映射到两个具有生物学相关性和功能的基因的CpG。识别重要的CpG标记可能对疾病的预防和治疗具有实际意义。
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