Department of Epidemiology, Fielding School of Public Health, University of California, Los Angeles, CA, 90095, USA.
Robert N. Butler Columbia Aging Center, Mailman School of Public Health, Columbia University, New York, NY, 10032, USA.
Geroscience. 2021 Dec;43(6):2795-2808. doi: 10.1007/s11357-021-00480-5. Epub 2021 Nov 2.
Methods to quantify biological aging are emerging as new measurement tools for epidemiology and population science and have been proposed as surrogate measures for healthy lifespan extension in geroscience clinical trials. Publicly available software packages to compute biological aging measurements from DNA methylation data have accelerated dissemination of these measures and generated rapid gains in knowledge about how different measures perform in a range of datasets. Biological age measures derived from blood chemistry data were introduced at the same time as the DNA methylation measures and, in multiple studies, demonstrate superior performance to these measures in prediction of healthy lifespan. However, their dissemination has been slow by comparison, resulting in a significant gap in knowledge. We developed a software package to help address this knowledge gap. The BioAge R package, available for download at GitHub ( http://github.com/dayoonkwon/BioAge ), implements three published methods to quantify biological aging based on analysis of chronological age and mortality risk: Klemera-Doubal biological age, PhenoAge, and homeostatic dysregulation. The package allows users to parametrize measurement algorithms using custom sets of biomarkers, to compare the resulting measurements to published versions of the Klemera-Doubal method and PhenoAge algorithms, and to score the measurements in new datasets. We applied BioAge to safety lab data from the CALERIE™ randomized controlled trial, the first-ever human trial of long-term calorie restriction in healthy, non-obese adults, to test effects of intervention on biological aging. Results contribute evidence that CALERIE intervention slowed biological aging. BioAge is a toolkit to facilitate measurement of biological age for geroscience.
方法来量化生物老化正在成为新的测量工具的流行病学和人口科学，并已被提议作为替代措施，以延长健康寿命的衰老科学临床试验。公开的软件包来计算从甲基化数据的生物老化测量已经加速了这些措施的传播，并产生了关于如何在一系列数据集不同的措施表现的快速知识增益。生物年龄措施从血液化学数据被引入的同时，DNA 甲基化的措施，并在多个研究中，表现出优于这些措施的健康寿命的预测。然而，他们的传播一直很慢，造成了知识的显著差距。我们开发了一个软件包来帮助解决这一知识差距。BioAge R 包，可在 GitHub 上下载（http://github.com/dayoonkwon/BioAge），实现了三种已发表的方法来量化生物老化基于分析的年龄和死亡率风险：Klemera-Doubal 生物年龄，表型年龄和体内平衡失调。该软件包允许用户使用自定义的生物标志物集来参数化测量算法，将生成的测量值与 Klemera-Doubal 方法和 PhenoAge 算法的已发表版本进行比较，并在新数据集上对测量值进行评分。我们应用 BioAge 安全实验室数据从 CALERIE ™随机对照试验，首次人类长期热量限制的试验在健康，非肥胖成年人，以测试干预对生物老化的影响。结果提供证据表明，CALERIE 干预减缓了生物衰老。BioAge 是一个工具包，以促进衰老科学的生物年龄测量。
