从单细胞RNA测序中获得的异性突变损失的贝叶斯系系谱重建
Donovan J Anderson1, Marshall S Horwitz2
1Allen Discovery Center for Lineage Tracing and Department of Laboratory Medicine & Pathology, University of Washington, Seattle, WA, USA.
Methods in molecular biology (Clifton, N.J.)
|January 2, 2025
概括
这项研究引入了一种新的方法,使用单细胞RNA测序来通过分析异合性 (LOH) 事件的损失来重建细胞系. 这种方法有助于理解大脑中的细胞分裂史和发育过程.
科学领域:
- 基因组学就是基因组学.
- 发展生物学 发展生物学
- 计算生物学 计算生物学
背景情况:
- 细胞基因组通过累积的突变记录了细胞分裂的历史.
- 异构性丧失 (LOH) 提供了一个高容量的系统,用于推断细胞系和遗传关系.
研究的目的:
- 开发和演示使用单细胞RNA测序 (scRNA-seq) 数据重建细胞系的贝叶斯方法.
- 标注重建的细胞系与细胞表型和发育时间点.
主要方法:
- 使用单细胞RNA测序 (scRNA-seq) 来推断整个基因组的异构性 (LOH) 事件的损失.
- 应用贝叶斯框架来重建基于推断的LOH模式的细胞系.
- 结合X染色体失活模式来标记发育时间点.
主要成果:
- 从推断的LOH事件成功重建了细胞系.
- 有注释的血统与细胞表型和发育时间.
- 应用该方法研究F1杂交小鼠中的Emx1+皮层投射神经元和质细胞系.
结论:
- 开发的方法可以从scRNA-seq数据中对细胞系和发育时间进行回顾性分析.
- 这种方法可以集成到标准的scRNA-seq管道中,以获得更深入的生物学见解.
- 这项研究阐明了通过刻板印象扩张和神经发生波通过原始细胞对多种皮层细胞类型的贡献.
相关概念视频
Evolutionary Relationships through Genome Comparisons
5.6K
Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
5.6K
Gene Evolution - Fast or Slow?
7.0K
The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
In contrast, regions which code...
7.0K
RNA-seq
9.7K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
9.7K


