在外周血液单核细胞 (PBMCs) 中进行RNA-Seq和基因组丰富分析 (GSEA)
Fayuan Wen1,2, Namita Kumari2,3, James G Taylor Vi4,5,6,7
1Department of Biology, Howard University, Washington, DC, USA.
Methods in molecular biology (Clifton, N.J.)
|February 3, 2025
概括
这项研究详细介绍了RNA测序 (RNA-Seq) 和基因组丰富分析 (GSEA),以了解外围血液单核细胞 (PBMC) 中的主体-HIV-1相互作用. 这些方法揭示了宿主防御机制和潜在的治疗点.
科学领域:
- 分子生物学分子生物学
- 文字转录学 (Transcriptomics) 是一个学科.
- 生物信息学是一种生物信息学.
背景情况:
- RNA测序 (RNA-Seq) 提供了对基因表达动态的深入了解.
- 基因组丰富分析 (GSEA) 识别了生物通路中的协调基因表达变化.
- 了解宿主-病原体相互作用对于开发疗法至关重要.
研究的目的:
- 介绍RNA-Seq和GSEA在研究宿主因素和PBMC中的HIV-1感染方面的工作流程.
- 阐明RNA-Seq在识别HIV-1限制因子中的作用.
- 为了证明GSEA在发现与HIV-1限制相关的功能基因表达变化的实用性.
主要方法:
- 对于PBMCs的RNA测序 (RNA-Seq) 工作流程,包括样本准备,图书馆建设,测序和生物信息学分析.
- 基因组丰富分析 (GSEA) 用于识别协调的基因表达模式.
- 对差异性基因表达,替代拼接和新型转录的分析.
主要成果:
- RNA-Seq精确量化基因表达,检测替代拼接,并识别与HIV-1限制相关的新型转录.
- 通过GSEA发现了细微的,协调的基因表达变化,这些变化在个体基因分析中是看不到的.
- 这项研究强调了PBMC宿主对HIV-1的防御机制.
结论:
- RNA-Seq和GSEA对于剖析复杂的宿主-病原体相互作用至关重要,例如HIV-1感染中的相互作用.
- 这些方法有助于识别宿主限制因素和潜在的治疗点.
- 综合的奥米克数据集和先进的生物信息学策略可以克服RNA-Seq数据分析的挑战.
更多相关视频
07:30Optimization for Sequencing and Analysis of Degraded FFPE-RNA Samples
Published on: June 8, 2020
11.9K
11:06Genome-wide Analysis of HDAC Inhibitor-mediated Modulation of microRNAs and mRNAs in B Cells Induced to Undergo Class-switch DNA Recombination and Plasma Cell Differentiation
Published on: September 20, 2017
6.1K
相关概念视频
03:21RNA-seq
9.8K
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...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
9.8K
02:24Ribosome Profiling
3.5K
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...
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...
3.5K