# 7.RNA Regulation - II

## Features from <mark style="color:red;">specific sequencing data</mark>

More features can be derived from **specific sequencing data for RNA**:&#x20;

| **Events**                                                                               | **Sequencing Methods**      | **Bioinformatics Tools**   |
| ---------------------------------------------------------------------------------------- | --------------------------- | -------------------------- |
| [**Translation**](/teaching/part-iii.-ngs-data-analyses/7.rna-regulation-ii/ribo_seq.md) | Ribo-seq                    | Ribocode, RiboWave, Xtail  |
| [**Structure**](/teaching/part-iii.-ngs-data-analyses/7.rna-regulation-ii/structure.md)  | icSHAPE, SHAPE-map, DMS-seq | icSHAPE-pipe, shapemapper2 |
| **Modification**                                                                         | m6A-seq, MeRIP-seq, miCLIP  | m6aViewer, MeRIP-PF        |
| **Degradation**                                                                          | Degradome-Seq (PARE-seq)    | sPARTA                     |
| ...                                                                                      | ...                         | ...                        |

有些RNA调控事件可以通过于比较**特殊的测序方法**来测量，例如:

* 各种RNA修饰(RNA编辑,m6A甲基化等)也会使序列发生改变，进而影响调控因子的结合或导致蛋白序列的改变。常规RNA-seq数据可以用来做RNA编辑的分析，其他的多数RNA修饰需要依赖于特殊的测序方法。
* miRNA会通过诱导转录本的降解等方式来调控基因表达。有很多生物信息学方法可以用来预测miRNA的结合位点，也有实验方法如Degradome-Seq (PARE-seq)可以通过对被降解的末端进行测序来对miRNA引发的降解事件进行分析。
* 很多RNA调控的结果是引起翻译的变化。ribo-seq为研究翻译组提供了有力的工具。
* RNA的结构在RNA调控中发挥了很重要的作用。目前已经有不少测序技术可以用来研究不同条件下细胞内RNA结构的变化，如icSHAPE, SHAPE-map等。

> **Literatures:**
>
> * [RNA Regulation - Lu Lab Docs](https://docs.ncrnalab.org/docs/literature-reading/ai/rna/postar)
> * [RNA Structure Prediction - Lu Lab Docs](https://docs.ncrnalab.org/docs/literature-reading/ai/rna/rna-structure)


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