Kedlian Veronika R, Donertas Handan Melike, Thornton Janet M
European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, CB10 1SD, UK.
Current Address - Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, CB10 1SA, UK.
Aging (Albany NY). 2019 Apr 19;11(8):2253-2280. doi: 10.18632/aging.101912.
Aging is broadly defined as a time-dependent progressive decline in the functional and physiological integrity of organisms. Previous studies and evolutionary theories of aging suggest that aging is not a programmed process but reflects dynamic stochastic events. In this study, we test whether transcriptional noise shows an increase with age, which would be expected from stochastic theories. Using human brain transcriptome dataset, we analyzed the heterogeneity in the transcriptome for individual genes and functional pathways, employing different analysis methods and pre-processing steps. We show that unlike expression level changes, changes in heterogeneity are highly dependent on the methodology and the underlying assumptions. Although the particular set of genes that can be characterized as differentially variable is highly dependent on the methods, we observe a consistent increase in heterogeneity at every level, independent of the method. In particular, we demonstrate a weak but reproducible transcriptome-wide shift towards an increase in heterogeneity, with twice as many genes significantly increasing as opposed to decreasing their heterogeneity. Furthermore, this pattern of increasing heterogeneity is not specific but is associated with a wide range of pathways.
衰老被广泛定义为生物体功能和生理完整性随时间推移而逐渐下降的过程。先前关于衰老的研究和进化理论表明,衰老不是一个程序化的过程,而是反映了动态随机事件。在本研究中,我们测试转录噪声是否会随年龄增长而增加,这是随机理论所预期的。利用人类大脑转录组数据集,我们采用不同的分析方法和预处理步骤,分析了单个基因和功能通路转录组中的异质性。我们发现,与表达水平变化不同,异质性的变化高度依赖于方法和潜在假设。虽然可被表征为差异可变的特定基因集高度依赖于方法,但我们观察到每个水平的异质性都持续增加,与方法无关。特别是,我们证明了全转录组范围内向异质性增加的微弱但可重复的转变,显著增加异质性的基因数量是显著降低异质性基因数量的两倍。此外,这种异质性增加的模式并非特异性的,而是与广泛的通路相关。