Droplet-based, high-throughput single cell transcriptional analysis of adult mouse tissue using 10X Genomics' Chromium Single Cell 3' (v2) system: From tissue preparation to bioinformatic analysis

The attached R Scripts supplement our protocol paper currently under editorial review at the Journal of Visualized Experiments.<br><b>Scope of the article:</b>This protocol describes the general processes and quality control checks necessary for preparing healthy adult single cells in preparation for droplet-based, high-throughput single cell RNA-Seq analysis using the 10X Genomics' Chromium System. We also describe sequencing parameters, alignment and downstream single-cell bioinformatic analysis.

随附的R脚本（R Scripts）可补充我们目前正在《可视化实验期刊》（Journal of Visualized Experiments）进行编辑评审的方案论文。<br><b>本文的研究范畴：</b>本方案详述了使用10X Genomics Chromium系统（10X Genomics' Chromium System）开展基于微滴的高通量单细胞RNA测序（single cell RNA-Seq）分析前，制备健康成人单细胞所需的通用流程与质量控制检测环节。本文同时阐述了测序参数、序列比对以及后续的单细胞生物信息学分析流程。