哺乳动物甲基化时钟 R 包：用于哺乳动物基于 DNA 甲基化的表观遗传时钟的软件。
MammalMethylClock R package: software for DNA methylation-based epigenetic clocks in mammals.
机构信息
Department of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, CA, 90095, United States.
Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, CA, 90095, United States.
出版信息
Bioinformatics. 2024 May 2;40(5). doi: 10.1093/bioinformatics/btae280.
MOTIVATION
Epigenetic clocks are prediction methods based on DNA methylation levels in a given species or set of species. Defined as multivariate regression models, these DNA methylation-based biomarkers of age or mortality risk are useful in species conservation efforts and in preclinical studies.
RESULTS
We present an R package called MammalMethylClock for the construction, assessment, and application of epigenetic clocks in different mammalian species. The R package includes the utility for implementing pre-existing mammalian clocks from the Mammalian Methylation Consortium.
AVAILABILITY AND IMPLEMENTATION
The source code and documentation manual for MammalMethylClock, and clock coefficient .csv files that are included within this software package, can be found on Zenodo at https://doi.org/10.5281/zenodo.10971037.
动机
表观遗传钟是基于给定物种或一组物种的 DNA 甲基化水平的预测方法。这些基于 DNA 甲基化的年龄或死亡风险生物标志物被定义为多元回归模型，在物种保护工作和临床前研究中非常有用。
结果
我们提出了一个名为 MammalMethylClock 的 R 包，用于在不同的哺乳动物物种中构建、评估和应用表观遗传钟。该 R 包包括实施哺乳动物甲基化联合会现有的哺乳动物时钟的实用程序。
可用性和实现
MammalMethylClock 的源代码和文档手册，以及包含在这个软件包中的时钟系数.csv 文件，可以在 Zenodo 上找到，网址为 https://doi.org/10.5281/zenodo.10971037。
Zotero 插件