RNA velocity | RNA速率

Posted 2020-12-31 leezx

单细胞转录组确实是利器，但我们大多只利用了表达的信息，而从reads到表达之间的信息完全被我们忽略了。

最近nature发了一篇单细胞方法类文章，讲得就是如何利用RNA velocity来做细胞发育路径的推断。

velocyto

RNA velocity of single cells

 

首先需要了解一些基本概念：

RNA velocity：the time derivative of the gene expression state—can be directly estimated by distinguishing between unspliced and spliced mRNAs in common single-cell RNA sequencing protocols. a high-dimensional vector that predicts the future state of individual cells on a timescale of hours. 比较抽象，一开始很难理解。

half-life of mRNA：Translation in both prokaryotes and eukaryotes involves three phases: initiation, elongation, and termination. The relative abundance of nascent (unspliced) and mature (spliced) mRNA can be exploited to estimate the rates of gene splicing and degradation. could reveal the rate and direction of change of the entire transcriptome during dynamic processes.

 

 

待续~

 

参考：

What happens to the mRNA after it has completed its job at the ribosome and the protein has been released?

Database for mRNA Half-Life of 19 977 Genes Obtained by DNA Microarray Analysis of Pluripotent and Differentiating Mouse Embryonic Stem Cells 

Messenger RNA Half-Life Measurements in Mammalian Cells