5. To identify these celltype-specific eQTLs using an unbiased approach, we used single-cell RNA sequencing to generate expression profiles of ~25,000 peripheral blood mononuclear cells from 45 donors. We identified previously reported cis-eQTLs, but also identified new celltype-specific cis-eQTLs...
Here, we present a single-cell RNA sequencing atlas of immune cells from cartilaginous (white-spotted bamboo shark) and bony (zebrafish and Chinese tongue sole) fishes. Cross-species comparisons show that the same cell types across different species exhibit similar transcriptional profiles. In the ...
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...
单细胞RNA测序(single-cell RNA sequencing,scRNA-seq)技术作为一项革命性工具,在单细胞水平上对转录组进行分析,已经被广泛用于多个方面的生物医学研究,包括肿瘤异质性研究、新细胞类型的鉴定、组织发育与细胞分化过程研究和基因调控网络研究等。通过scRNA-seq获得高通量的单细胞转录组数据后,利用原位组织学验证是目前流行...
adenosquamous carcinoma; CAF, cancer-associated fibroblast; DC, dendritic cell; GBC, gallbladder cancer; IF, immunofluorescence; IHC, immunohistochemistry; scRNA-seq, single-cell RNA sequencing; Treg, regulatory T cell; UMAP, uniform manifold approximation and projection; WES, whole-exome sequencing. ...
2017年发表在Nature Methods杂志上的SCENIC[1]算法,利用单细胞RNA-seq数据,同时进行基因调控网络重建和细胞状态鉴定,应用于肿瘤和小鼠大脑单细胞图谱数据,提出并证明了顺式调控网络分析能够用于指导转录因子和细胞状态的鉴定。SCENIC通过使用生物学驱动的features自动清除肿瘤样本特异性等批次效应。
该技术融合了sNuc-Seq技术与微流控技术的单细胞核RNA测序方法,可以在结构复杂的组织中更有效地分析大量细胞或细胞核中的RNA,开启单细胞核测序的规模化时代。 在利用单细胞技术来研究大脑等复杂组织的基因表达时,研究人员总会觉得困难重重,因为复杂组织不易分离,难以辨别,分离细胞的过程会经常破坏目的神经元和RNA。sNuc...
在本周一的文章(复现原文(一):Single-cell RNA sequencing of human kidney(step by step))中,我们完成了scRNA-seq数据的质控(Hemberg-lab单细胞转录组数据分析(三)- 原始数据质控)、批次校正、找Marker基因(单细胞分群后,怎么找到Marker基因定义每一类群?)、UMAP可视化和tSNE可视化(Hemberg-lab单细胞转录组数据分...
TIME-related lncRNA signature DDR: DNA damage repair scRNA-seq: Single-cell RNA sequencing PCA: Principal component analysis UMAP: Uniform Manifold Approximation and Projection RMA: Robust multi-array average WGCNA: Weighted correlation network analysis TOM: Topological overlap matrix GO: Ge...
复现原文(二):Single-cell RNA sequencing of human NGS系列文章包括 NGS基础、转录组分析 (Nature重磅综述|关于RNA-seq你想知道的全在这)、ChIP-seq分析 (ChIP-seq基本分析流程)、单细胞测序分析 (重磅综述:三万字长文读懂单细胞RNA测序… 生信宝典 ...发表于生信宝典 平平无奇的单细胞RNA-seq分析加上平平无...