As a first step, asingle‐cell suspension is generatedin a process called single‐cell dissociation in which the tissue is digested. plate-based & droplet-based 但是都存在问题,In both cases, errors can occur that lead to multiple cells being captured together(doublets or multiplets),non‐viable...
Current best practices in single‐cell RNA‐seq analysis: a tutorialwww.embopress.org/doi/full/10.15252/msb.20188746 单细胞RNA测序(scRNA-seq )是一个飞速发展的领域,该技术帮助科研人员从一堆细胞(bulk)水平精细到单细胞(single-cell)水平研究基因的表达状态,从而可以更加精细的刻画科研对象的分子状态(例...
analysis pipeline development, computational biology, data analysis tutorial, single‐cell RNA‐seqSingle‐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...
第二种方法是利用无监督的聚类方法先将不同的细胞类型聚类,然后连接每一个cell cluster,再把这些cell cluster投影到每一个分支上 还有一种是利用RNA降解速率来推断细胞发育轨迹,RNAvelocity就是利用这个原理,其原理大致为传送门 差异表达 在单细胞差异表达显著性检验中,往往利用非参数non-parametric Wilcoxon test做检验。
查看《Inference and effects of barcode multiplets in droplet-based single-cell assays》文献: 基于液滴的分流系统已成为单细胞基因组学研究必不可少的工具。与基于板的单细胞测定相比,基于液滴的方法,包括scRNA-seq和 scATAC-seq技术,可以在单个实验分析数千个细胞。检测细胞通量的显着增加是通过使用bead对细胞cD...
Single-cell RNA sequencing (scRNA-seq) is a popular and powerful technology that allows you to profile the whole transcriptome of a large number of individual cells. However, the analysis of the large volumes of data generated from these experiments requires specialized statistical and computational ...
Luecken MD, Theis FJ (2019) Current best practices in single-cell RNA-seq analysis: a tutorial. Mol Syst Biol 15 Google Scholar Neu KE, Tang Q, Wilson PC, Khan AA (2017) Single-cell genomics: approaches and utility in immunology. Trends Immunol 38:140–149 Article CAS PubMed PubMed...
J. Current best practices in single-cell RNA-seq analysis: a tutorial. Mol. Syst. Biol. 15, e8746 (2019). This scRNA-seq-focused review and workflow template served as inspiration for the current benchmark-based Expert Recommendation. Article PubMed Central PubMed Google Scholar Kharchenko,...
ATAC sequencing Chromatin accessibility Single-cell biology Single-cell ATAC sequencing Single-cell RNA sequencing 1. Introduction Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-seq) was designed to identify open chromatin regions in the genome [1]. Due to the use of...
Defining cell types and states with single-cell genomics. Genome Res. 25, 1491–1498 (2015). Article CAS PubMed PubMed Central Google Scholar Luecken, M. D. & Theis, F. J. Current best practices in single-cell RNA-seq analysis: a tutorial. Mol. Syst. Biol. 15, e8746 (2019). ...