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在使用RISER进行直接RNA测序时实时进行无生物化学物质的RNA类的丰富或耗尽

Alexandra Sneddon^1,2,3, Agin Ravindran^1,2,3, Somasundhari Shanmuganandam^4,5

¹EMBL Australia Partner Laboratory Network at the Australian National University, Canberra, ACT 2601, Australia.

Nature communications

|May 24, 2024

概括

RISER是一种新的无生化技术,在直接RNA测序过程中丰富了RNA检测. 它实时耗尽丰富的RNA类,改善检测弱表达的RNA分子.

科学领域:

基因组学和分子生物学
生物信息学和计算生物学

背景情况:

细胞转录组是复杂的,这使得很难检测低丰度的RNA类被丰富的类所掩盖.
现有的生物化学方法用于RNA丰富/耗尽是昂贵的,耗时的,并且可以降低RNA完整性.

研究的目的:

在直接RNA测序过程中引入RISER,这是一种新的无生物化学物质的技术,用于实时RNA类丰富或枯竭.
通过减少来自主导RNA物种的干扰,证明RISER提高检测低丰度RNA的能力.

主要方法:

RISER利用深度学习来实时从纳米孔信号中识别RNA类.
它通过与测序硬件直接通信,选择性地拒绝不需要的RNA分子.
该技术是模块化的,可重组的,并具有用户友好的命令行界面.

主要成果:

RISER使主要的信使和线粒体RNA类减少了85%以上,使长非编码RNA的测序深度增加了47%.
在全血中,RISER降低了全球蛋白mRNA读数超过90%,增加了非全球蛋白读数16%.
RISER处理速度比GPU加速的基础调用和映射要快.

结论:

在直接RNA测序中,RISER提供了一种高效,实时和可适应的解决方案,用于针对性的RNA枯竭或丰富.
这项技术克服了传统生化方法的局限性,增强了复杂的转录组的研究.
由于RISER的速度和灵活性,它对各种RNA分析应用非常有价值.

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