论文标题
Prime：在多个大脑区域中，揭开昼夜节律振荡模式和与AD的关联
PRIME: Uncovering Circadian Oscillation Patterns and Associations with AD in Untimed Genome-wide Gene Expression across Multiple Brain Regions
论文作者
论文摘要
昼夜节律的破坏是阿尔茨海默氏病（AD）患者的基本症状。人类大脑中基因表达的完整昼夜节律编排及其与AD的固有关联仍然在很大程度上未知。我们提出了一种新颖的综合方法，即Prime，以检测和分析在多个数据集中不合时宜的高维基因表达数据中的节奏振荡模式。为了证明Prime的实用性，首先，我们通过从小鼠肝脏的时间课程表达数据集作为跨物种和跨器官验证来验证它。然后，我们将其应用于研究来自19个对照和AD患者的19个人脑区域的未接收基因组基因表达中的振荡模式。我们的发现揭示了15对控制大脑区域中清晰，同步的振荡模式，而这些振荡模式要么消失或昏暗。值得注意的是，Prime在不需要样本的时间戳而发现昼夜节律的节奏模式。 Prime的代码以及本文中复制数字的代码，请访问https://github.com/xinxingwu-uk/prime。
The disruption of circadian rhythm is a cardinal symptom for Alzheimer's disease (AD) patients. The full circadian rhythm orchestration of gene expression in the human brain and its inherent associations with AD remain largely unknown. We present a novel comprehensive approach, PRIME, to detect and analyze rhythmic oscillation patterns in untimed high-dimensional gene expression data across multiple datasets. To demonstrate the utility of PRIME, firstly, we validate it by a time course expression dataset from mouse liver as a cross-species and cross-organ validation. Then, we apply it to study oscillation patterns in untimed genome-wide gene expression from 19 human brain regions of controls and AD patients. Our findings reveal clear, synchronized oscillation patterns in 15 pairs of brain regions of control, while these oscillation patterns either disappear or dim for AD. It is worth noting that PRIME discovers the circadian rhythmic patterns without requiring the sample's timestamps. The codes for PRIME, along with codes to reproduce the figures in this paper, are available at https://github.com/xinxingwu-uk/PRIME.
