Cells from non-human primate and human retina have been clustered and identified as retinal major cell types. The peaks of fragments are enriched at the transcription start sites of cell-type-specific genes for corresponding clusters. Conclusions : Single-cell ATAC-seq is a promising tool that ...
Single-cell ATAC sequencing analysis: from data preprocessing to hypothesis generation. Comput. Struct. Biotechnol. J. 18, 1429–1439 (2020). This article serves as an introduction to the scATAC-seq analysis workflow. Article CAS PubMed Central PubMed Google Scholar Stoeckius, M. et al. ...
Single-cell ATAC-seq (scATAC-seq) profiles the chromatin accessibility landscape at single cell level, thus revealing cell-to-cell variability in gene regulation. However, the high dimensionality and sparsity of scATAC-seq data often complicate the analysis. Here, we introduce a method for analyzing...
Single-Cell ATAC-seq analysis via Latent feature Extraction News 2022.06.30 Introduce the highly_variable_genes from scanpy to filter peaks and support for input from multiomics data h5mu 2021.04 A new online integration tool SCALEX on scRNA-seq and scATAC-seq is available! 2021.01.14 Update to...
Fig. 1. Schematic overview of a typical single-cell ATAC sequencing analysis workflow. 2. Single-cell ATAC sequencing technologies Within two years of the development of bulk ATAC-seq technology, two different strategies of single-cell adaptations were introduced: split-and-pool combinatorial cellular...
snDrop-seq+scTHS-seq 张鹍教授团队本月又在Nature Biotechnology杂志上发表了“Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain (doi: 10.1038/nbt.4038)”的文章。开发了基于冰冻组织高通量单细胞核测序方法来绘制成年人脑第二代单细胞图谱,再次引爆了单细胞研究...
Immune Single-Cell Hub，肿瘤免疫单细胞中心）数据库重新分析、聚类、注释并在网站上提供了scRNA-seq...
We demonstrate the use of RAPIDS pipeline to accelerate the analysis of single-cell ATAC-seq data from 60,495 cells. RAPIDS is a suite of open-source Python libraries that can speed up data science workflows. We start with the peak-cell matrix, then perform peak selection, normalization, ...
当然,通量还是比较小。但不可否认的是,现在很多非RNA类Single Cell测序,仍然在采用这样的技术,如Single Cell DNA-Seq,Single Cell ATAC-Seq等,都是采用此技术进行单细胞分选后再分别用不同试剂盒建库。所以可以说,至少在10X和BD,或者其他企业推出有效的Single DNA测序技术之前,C1仍然会是市场上的重要组成部分。
Smashing single-cell sequencing sensitivity Change of heart: exploring transcriptional variation in cardiomyocytes Accelerating chromatin mapping with single-cell ATAC-seq Bringing epigenomic profiling to the single-cell biology stage Using the power of RNA-seq to characterize brain cell types Stem ...