分析结核分枝杆菌感染小鼠肺部单细胞 RNA-seq 数据的方案。
A protocol to analyze single-cell RNA-seq data from Mycobacterium tuberculosis-infected mice lung.
机构信息
Department of Microbiology, The University of Chicago, Chicago, IL 60637, USA.
Department of Microbiology, The University of Chicago, Chicago, IL 60637, USA.
出版信息
STAR Protoc. 2023 Sep 15;4(3):102544. doi: 10.1016/j.xpro.2023.102544. Epub 2023 Aug 31.
Processing and analyzing single-cell RNA-seq (scRNA-seq) from lung cells are challenging due to the complexity of cell subtypes and biological variations within sample groups. Here, we present a protocol for performing an in-depth assessment on lung lymphocyte populations derived from healthy and Mycobacterium tuberculosis-infected mice. We describe steps for downloading processed scRNA-seq data, integrating samples across different conditions, and performing cluster analysis. We then detail procedures for identifying lymphoid cell subtypes, differential analysis, and pathway enrichment analysis. For complete details on the use and execution of this protocol, please refer to Akter et al. (2022)..
由于肺细胞的细胞亚型复杂和样本组内的生物学差异，处理和分析单细胞 RNA 测序 (scRNA-seq) 具有挑战性。在这里，我们提供了一种从健康和结核分枝杆菌感染的小鼠中提取肺淋巴细胞群体进行深入评估的方案。我们描述了下载处理后的 scRNA-seq 数据、整合不同条件下的样本以及进行聚类分析的步骤。然后，我们详细介绍了鉴定淋巴样细胞亚型、差异分析和通路富集分析的步骤。有关此方案的使用和执行的完整详细信息，请参阅 Akter 等人（2022 年）。
Zotero 插件