An Informatics Pipeline for Profiling and Annotating RNA Modifications.
An Informatics Pipeline for Profiling and Annotating RNA Modifications.
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DOI：
10.1007/978-1-0716-1374-0_2
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发表时间：
2021
影响因子：
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通讯作者：
Qi Liu;X. Lang;R. Gregory
中科院分区：
文献类型：
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作者：
Qi Liu;X. Lang;R. Gregory
虽然已知有超过150种不同类型的化学修饰发生在各种细胞RNA上，并且可以动态控制，但大多数这些修饰的功能仍然不清楚。总而言之，这些RNA修饰最近被称为“表位转录组”。识别和注释整个转录组中的单个RNA修饰是研究表观转录组在基因表达调控中的作用以及阐明特定RNA修饰在不同生理和疾病过程中的功能相关性的关键。在这个协议中，我们演示了如何基于甲基化RNA免疫沉淀和测序的信息分析(MERIP-SEQ)数据，使用RNAmod来识别和注释RNA修饰，RNAmod是一个方便的一站式在线交互平台，用于注释、分析和可视化mRNA修饰。
While over 150 distinct types of chemical modifications are known to occur on various cellular RNAs and can be dynamically controlled, the function of most of these modifications remains poorly defined. Collectively, these RNA modifications have been recently termed the “epitranscriptome”. Identification and annotation of individual RNA modifications throughout the transcriptome are key for studying the role of the epitranscriptome in the regulation of gene expression and for elucidating the functional relevance of particular RNA modifications in diverse physiological and disease processes. In this protocol, we demonstrate how to identify and annotate RNA modifications based on the informatic analysis of methylated RNA immunoprecipitation and sequencing (MeRIP-seq) data, using RNAmod, a convenient one-stop online interactive platform for the annotation, analysis, and visualization of mRNA modifications.