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scITDG:用于识别单细胞转录组测序数据中的时间依赖基因的工具

Yandong Zheng^1,2,3, Chengyu Liu^1,2,3, Weiqi Zhang^4,3,5

¹State Key Laboratory of Organ Regeneration and Reconstruction, Institute of Zoology, Chinese Academy of Sciences, Beijing, 100101 China.

Marine life science & technology

|December 1, 2025

概括

我们开发了scITDG,这是一个用于分析单细胞数据中的时间依赖基因表达的新工具. 这种方法揭示了对于理解衰老和再生过程至关重要的动态基因模式.

科学领域:

单细胞转录组学单细胞转录组学
计算生物学是一种计算生物学.
系统生物学系统生物学

背景情况:

在单细胞分辨率下分析时间依赖的基因表达对于理解动态生物过程至关重要.
现有的工具缺乏全面的能力,以捕捉单细胞中的时间基因表达动态.

研究的目的:

介绍scITDG,这是一个新的计算工具,用于分析单细胞RNA测序数据中的时间依赖基因表达.
通过先进的时间分析功能来增强现有的单细胞分析平台 (Seurat,Scanpy).

主要方法:

整合自然立方线回归与引导重新抽样.
开发scITDG,以便与Seurat和Scanpy工作流程兼容.
应用scITDG来分析衰老和再生模型中的基因表达动态.

主要成果:

scITDG有效地识别了多个时间点的单细胞分辨率的动态基因表达模式.
揭示了与老鼠衰老相关的复杂基因表达模块.
在轴突肢体再生过程中发现基因表达动态.

结论:

scITDG解决了单细胞时间数据分析中的一个关键缺口.
该工具为细胞功能和衰老和再生中的反应机制提供了宝贵的见解.
scITDG是多功能且适用于各种生物背景,如发育,疾病和治疗反应.

关键词:

衰老的衰老衰老的衰老再生再生再生的过程单细胞测序是一种单细胞测序.时间依赖基因在 scITDG R 软件包中.

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RNA-seq

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...