Current best practices in single-cell RNA-seq analysis: a tutorial.,Molecular Systems Biology

当前位置： X-MOL 学术 › Mol. Syst. Biol. › 论文详情

Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)

Current best practices in single-cell RNA-seq analysis: a tutorial.
Molecular Systems Biology ( IF 8.5 ) Pub Date : 2019-06-19 , DOI: 10.15252/msb.20188746
Malte D Luecken ₁ , Fabian J Theis _{2,

3}

Affiliation

Single-cell RNA-seq has enabled gene expression to be studied at an unprecedented resolution. The promise of this technology is attracting a growing user base for single-cell analysis methods. As more analysis tools are becoming available, it is becoming increasingly difficult to navigate this landscape and produce an up-to-date workflow to analyse one's data. Here, we detail the steps of a typical single-cell RNA-seq analysis, including pre-processing (quality control, normalization, data correction, feature selection, and dimensionality reduction) and cell- and gene-level downstream analysis. We formulate current best-practice recommendations for these steps based on independent comparison studies. We have integrated these best-practice recommendations into a workflow, which we apply to a public dataset to further illustrate how these steps work in practice. Our documented case study can be found at https://www.github.com/theislab/single-cell-tutorial This review will serve as a workflow tutorial for new entrants into the field, and help established users update their analysis pipelines.

中文翻译：

当前单细胞 RNA-seq 分析的最佳实践：教程。

单细胞 RNA-seq 使得能够以前所未有的分辨率研究基因表达。这项技术的前景正在吸引越来越多的单细胞分析方法用户群。随着越来越多的分析工具变得可用，驾驭这种情况并生成最新的工作流程来分析数据变得越来越困难。在这里，我们详细介绍了典型的单细胞 RNA-seq 分析的步骤，包括预处理（质量控制、标准化、数据校正、特征选择和降维）以及细胞和基因水平的下游分析。我们根据独立比较研究为这些步骤制定当前最佳实践建议。我们已将这些最佳实践建议集成到工作流程中，并将其应用于公共数据集，以进一步说明这些步骤在实践中如何发挥作用。我们记录的案例研究可以在 https://www.github.com/theislab/single-cell-tutorial 中找到。这篇评论将作为该领域新进入者的工作流程教程，并帮助已建立的用户更新他们的分析流程。

更新日期：2019-11-18

点击分享查看原文

点击收藏

公开下载

阅读更多本刊最新论文本刊介绍/投稿指南11