Normalized coefficient of variation (nCV): a method to evaluate circadian clock robustness in population scale data.
Normalized coefficient of variation (nCV): a method to evaluate circadian clock robustness in population scale data.
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DOI：
10.1093/bioinformatics/btab731
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发表时间：
2021-12-07
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影响因子：
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通讯作者：
Hogenesch JB
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作者：
Wu G;Francey LJ;Ruben MD;Hogenesch JB
生物钟基因的稳定振荡是昼夜节律系统的核心特征。相对振幅（rAMP）测量时钟基因振荡的鲁棒性，但仅适用于纵向样本。我们缺乏一种方法来估计没有标记时间的人类样本的鲁棒振荡。我们发现，10个时钟基因的归一化变异系数（nCV）与其归一化的rAMP线性相关，独立于时间标签。我们发现，与非肿瘤相比，时钟基因的平均nCV在肿瘤中持续降低，这表明通过增强时钟鲁棒性来治疗癌症的新治疗靶点。nCV可以提供人口水平数据集的时钟鲁棒性的简单度量。nCV包（https：//github.com/gangwug/nCV）和Web应用程序（https：//github.com/gangwug/nCVapp）可在GitHub存储库中获得。 补充数据可在Bioinformatics在线获得。
Robust oscillation of clock genes is a core feature of the circadian system. Relative amplitude (rAMP) measures the robustness of clock gene oscillations but only works for longitudinal samples. We lack a method for estimating robust oscillations from human samples without labeled time. We show that the normalized coefficient of variation (nCV) of 10 clock genes is linearly correlated with their normalized rAMP, independent of time labels. We found that the mean nCV of clock genes are consistently decreased in tumors compared to nontumors, suggesting a new therapeutic target in cancer treatment by enhancing clock robustness. nCV can provide a simple measure of the clock robustness in population-level datasets. The nCV package (https://github.com/gangwug/nCV) and web application (https://github.com/gangwug/nCVapp) are available on the GitHub repository. Supplementary data are available at Bioinformatics online.