使用tRFUniverse功能分析分析小RNA-seq数据分析tRNA衍生的ncRNA的协议.
Alessandro La Ferlita1, Giovanni Nigita2, Alfredo Ferro3
1Department of Internal Medicine, Division of Medical Oncology, Pelotonia Institute for Immuno-Oncology, The James Comprehensive Cancer Center, The Ohio State University, Columbus, OH, USA.
STAR protocols
|June 12, 2025
概括
本研究介绍了一种分析tRNA衍生碎片 (tRFs) 的协议,使用小RNA测序 (smRNA-seq). 该方法有助于在肺癌等疾病中识别失调的tRF.
科学领域:
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
背景情况:
- 小RNA测序 (smRNA-seq) 对于理解tRNA衍生碎片 (tRFs) 是至关重要的.
- tRF在人类生理学和疾病中起着重要的作用.
- 对于准确的tRF表达式分析,需要标准化的协议.
研究的目的:
- 从smRNA-seq数据中评估tRF表达的综合性协议.
- 为了能够对tRF表达数据进行可靠的量化和协调.
- 为了促进在疾病背景下对tRFs的功能分析.
主要方法:
- smRNA-seq数据预处理的详细步骤,包括质量过和适配器修剪.
- 阅读映射策略用于准确的tRF识别.
- 量化tRF表达和协调数据集的程序.
- 使用tRFUniverse进行功能分析.
主要成果:
- 该协议有效地从smRNA-seq数据中评估tRF表达.
- 使用TCGA数据进行的肺癌病例研究显示tRFs显著失调.
- 确定了与肺癌病原发生相关的特定tRF.
结论:
- 开发的协议为tRF表达式分析提供了一种可靠的方法.
- 失调的tRF是肺癌中的潜在生物标志物和治疗点.
- 这项工作促进了对人类健康和疾病中tRF的进一步研究.
相关概念视频
03:21RNA-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...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
02:24Ribosome Profiling
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...