从纳米孔直接RNA测序的ac4C和m5C修饰的同时分析
You Wu1, Wenna Shao1, Shuai Liu1
1Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.
International journal of biological macromolecules
|February 15, 2025
概括
研究人员开发了modCnet,这是一个深度学习工具,可以使用纳米孔测序同时检测N4-乙基丁 (ac4C) 和5-甲基丁 (m5C) 的RNA修饰. 这一进步使得研究这些关键RNA修饰的组合作用成为可能.
科学领域:
- 分子生物学分子生物学
- 生物信息学是一种生物信息学.
- 基因组学就是基因组学.
背景情况:
- N4-乙基丁 (ac4C) 和5-甲基丁 (m5C) 是影响mRNA稳定性,翻译和应激反应的重要RNA修饰.
- 现有的纳米孔测序方法不能同时识别ac4C和m5C修饰 de novo.
- 同时检测对于理解同时发生的RNA修饰的生物功能至关重要.
研究的目的:
- 开发一个深度学习框架,modCnet,用于同时识别ac4C和m5C修改.
- 利用纳米孔直接RNA测序来单分子级检测这些修饰.
- 为了使同时发生的RNA修饰的生物学影响的研究.
主要方法:
- 具有已知的ac4C和m5C修改的体外转录生成.
- 开发和应用modCnet,一个深度学习模型,用于纳米孔直接RNA测序数据.
- 使用补充技术进行验证:RIP-seq,BisSeq,RedaC:T-seq和NaBH诱导的RT停止事件.
主要成果:
- modCnet在从单个样本中识别ac4C和m5C修改方面表现出高性能.
- 该工具已成功应用于检测人体细胞系体内mRNA上的ac4C和m5C位.
- 实验验证证证实了modCnet预测的准确性和可靠性.
结论:
- modCnet提供了一种多功能解决方案,可以同时对ac4C和m5CRNA修改进行新的识别.
- 这种方法推进了单分子水平上RNA修饰的研究.
- 研究同时发生的修饰的能力为了解它们的综合生物功能开辟了新的途径.
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