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单细胞RNA测序与单分子RNA成像的定量比较,用于量化转录噪声

Neha Khetan¹, Binyamin Zuckerman¹, Giuliana P Calia¹

¹Gladstone|UCSF Center for Cell Circuitry, University of California, San Francisco, CA 94158.

bioRxiv : the preprint server for biology

|August 16, 2024

概括

随机波动,或转录噪声,导致细胞变异. 这项研究表明,IdU放大噪音,验证了scRNA-seq对噪音量化的算法,尽管它们低估了与smFISH相比的真实噪音水平.

科学领域:

分子生物学分子生物学
基因组学就是基因组学.
细胞生物学细胞生物学

背景情况:

基因转录中的随机波动导致细胞对细胞的显著变化.
使用单细胞RNA测序 (scRNA-seq) 量化全基因组的转录噪声存在挑战.

研究的目的:

评估和比较各种scRNA-seq算法的噪声量化.
评估小分子扰动 (IdU) 对增强和研究转录噪声的实用性.

主要方法:

利用IdU在人类和小鼠细胞数据集中放大转录噪声.
应用多个scRNA-seq分析算法来量化噪声.
通过单分子RNA光在位杂交 (smFISH) 对特定基因进行验证的发现.

主要成果:

大多数scRNA-seq算法在IdU治疗后检测到大约90%的基因的放大噪声,而不会改变平均表达.
smFISH分析证实了大多数测试基因的噪音放大.
与smFISH相比,所有测试的scRNA-seq方法都系统地低估了噪音水平.

结论:

大多数scRNA-seq算法,包括简单的规范化方法,都适合量化转录噪声.
IdU作为一种强大的,全球作用的噪声增强剂,不影响平均表达水平.
IdU可以促进对转录噪声的生理后果的调查.

关键词:

噪声增强分子分子单分子RNA 鱼类 (smFISH) 鱼类单细胞RNA测序 (scRNA-seq) 是一种转录的噪声转录的噪声

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相关概念视频

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...