In contrast, droplet-based approaches have higher cell recovery and may be advantageous when cell input is limited. The step-by-step sciATAC-seq protocol described here is amenable to diverse cell types and fixed samples. For complete details on the use and execution of this protocol, please ...
ATAC-Seq 和单细胞 ATAC-Seq (scATAC-Seq) 是研究负责调节特定细胞反应或导致疾病状态的表观遗传机制的强大工具。本次网络研讨会将解释这些流行技术的工作原理,并讨论它们如何在表观遗传学研究中发挥作用。网络研讨会的主题包括:ATAC-Seq 和 scATAC-Seq 概述及其提供的信
This protocol describes a fast and robust method for single-cell chromatin accessibility profiling based on the assay for transposase-accessible chromatin using sequencing (ATAC-seq). The method combines up-front bulk Tn5 tagging of chromatin with flow cytometry to isolate single nuclei or cells. ...
另一个例子就是利用单细胞ATAC-seq对肿瘤微环境的分析。样品是来自basal cell carcinoma的患者,这些患者接受了PD-1抑制剂免疫治疗。scATAT-seq可以区分微环境里的免疫细胞、基质细胞、肿瘤细胞(UMAP plot)。文献作者发现所有的基质细胞和免疫细胞都集中在一起(不同的患者之间),而肿瘤细胞则被清楚的分成4个clusters,...
另一个例子就是利用单细胞ATAC-seq对肿瘤微环境的分析。样品是来自basal cell carcinoma的患者,这些患者接受了PD-1抑制剂免疫治疗。scATAT-seq可以区分微环境里的免疫细胞、基质细胞、肿瘤细胞(UMAP plot)。文献作者发现所有的基质细胞和免疫细胞都集中在一起(不同的患者之间),而肿瘤细胞则被清楚的分成4个clusters,...
(DARs) for each single-cell ATAC-seq sample. Enrichments with a Benjamini–Hochberg method-adjusted hypergeometric testp-value < 0.05 are shown in colors, while nonsignificant (ns) enrichments are shown in white. The barplots above the matrices indicate the number of open DARs found for each...
“Omni” ATAC-seq protocol [13] or the 10× protocol (see “Methods”). After performing indexed tagmentation on a 96-well plate and pooling all nuclei, 75,000 nuclei from the pool were loaded onto a single 10× lane. The sample and cell-specific information of the resulting ...
使用Cicero包进行单细胞ATAC-seq分析(二):Constructing cis-regulatory networks 在本教程中,我们将学习使用Cicero基于单细胞ATAC-seq数据进行细胞发育轨迹推断分析。 Cicero的第二个主要功能是扩展了Monocle包的功能,可以利用单细胞染色质可及性数据进行细胞发育轨迹推断分析。单细胞染色质可及性数据的主要特点是稀疏性,因...
Protocol Nature Protocols(2023) Mitochondrial single-cell ATAC-seq for high-throughput multi-omic detection of mitochondrial genotypes and chromatin accessibility Caleb A. Lareau ,Vincent Liu,Christoph Muus,Samantha D. Praktiknjo...Leif S. Ludwig ...
Single-Cell ATAC-Seq Identify chromatin accessibility in the epigenome by profiling thousands of single cells in parallel, and discover how chromatin structure and DNA-binding proteins regulate gene expression in varying states and cellular processes. Learn More Single-Cell Immuno-Profiling Examine the...