血液转录组学分析提供了对SARS-CoV-2变种特异性免疫反应的见解
Markus Hoffmann1,2,3, Lina-Liv Willruth4, Alexander Dietrich4
1Data Science in Systems Biomedicine, TUM School of Life Sciences, Technical University of Munich, Freising, Germany. markus.hoffmann@nih.gov.
Scientific reports
|February 2, 2024
概括
大量RNA测序 (RNA-seq) 提供了一个强大的诊断工具,揭示了免疫细胞组成和B细胞/T细胞受体谱. 这种方法为免疫状态和疾病分类提供了宝贵的见解,即使每样本读数为1000万次.
科学领域:
- 基因组学就是基因组学.
- 免疫学 免疫学 免疫学
- 生物信息学是一种生物信息学.
背景情况:
- 大量RNA测序 (RNA-seq) 尽管具有潜力,但在临床实践中尚未得到充分利用.
- 目前的临床诊断依赖于全血细胞计 (CBC) 等方法,这些方法提供有限的分子洞察力.
研究的目的:
- 建立大量RNA-seq作为全面免疫分析的诊断工具.
- 评估RNA-seq用于评估免疫细胞组成,基因表达和B细胞/T细胞受体 (BCR/TCR) 谱.
- 为了确定可靠的诊断RNA-seq分析所需的最小测序深度.
主要方法:
- 对计算细胞类型解卷方法 (MCP计数器,xCell,EPIC,quanTIseq) 与CBC数据进行比较分析.
- 使用MiXCR和TRUST4识别和分析BCR/TCR序列,结合序列对齐和BLASTp.
- 对来自196名感染SARS-CoV-2变种的患者的大量RNA-seq数据的分析.
主要成果:
- RNA-seq提供了对免疫状况的见解,包括淋巴细胞枯竭和中性粒细胞水平在SARS-CoV-2变种中的变化.
- 分析BCR/TCR目录有助于对患者的疾病状况进行分类.
- 每个样本1000万次读取足以进行准确的诊断RNA-seq分析.
结论:
- 大量RNA-seq,使用计算解卷和BCR/TCR方法,可以补充CBC数据用于增强诊断.
- RNA-seq为免疫反应,疾病严重程度和病原体特异性免疫提供了深入的见解.
- 具有成本效益的RNA-seq分析 (千万读数/样本) 是可行的临床应用.
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