嵌合式读取的分析描述了AGO2介导调节的多样化的目标组
Vaclav Hejret1,2, Nandan Mysore Varadarajan1,2, Eva Klimentova1,2
1Central European Institute of Technology, Masaryk University, 62500, Brno, Czech Republic.
Scientific reports
|December 21, 2023
概括
这项研究使用CLASH和eCLIP方法识别了数千个阿尔戈诺特蛋白2 (AGO2) 点. 这些发现揭示了超越微RNA的新型AGO2导向RNA,扩大了对RNA调节的理解.
科学领域:
- 分子生物学分子生物学
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
背景情况:
- 阿尔戈纳特蛋白质,特别是AGO2,通过结合小RNA来调节基因表达.
- 了解AGO2指导-目标相互作用对于破译RNA稳定性和翻译控制至关重要.
- 缺乏AGO2相互作用的全面数据集.
研究的目的:
- 通过实验识别和表征AGO2结合导向RNA及其点.
- 建立AGO2约束偏好的预测模型.
- 扩大已知的AGO2指导RNA的范围.
主要方法:
- 使用了AGO2交叉连接,结合和测序 (CLASH) 和个人CLIP (eCLIP) 技术.
- 开发了一种新的生物信息学管道来分析模拟读取链接指南和目标序列.
- 采用卷积神经网络用于基于机器学习的结合潜力的预测.
主要成果:
- 产生了数千个经过实验验证的AGO2目标站点.
- 发现AGO2不仅结合了微RNA,还结合了各种非编码RNA (tRNA,snoRNA,rRNA等) 的片段. ) 的情况.
- 开发了准确的机器学习模型来预测AGO2绑定和验证关键相互作用.
结论:
- AGO2指南谱系比以前知道的要多样化,影响了基因调节.
- 这项研究为了解AGO2在发育和疾病中的功能提供了强大的资源.
- 自由可用的生物信息工具和数据有助于未来对AGO2目标的研究.
相关概念视频
02:24Regulation of Expression Occurs at Multiple Steps
Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
02:36Chromatin Immunoprecipitation- ChIP
Chromatin immunoprecipitation, or ChIP, is an antibody-based technique used to identify sites on DNA that bind to transcription factors of interest or histone proteins. It also helps determine the type of histone modifications such as acetylation, phosphorylation, or methylation.
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...
Types of ChIP
ChIP can be divided into two types - X-ChIP and N-ChIP. X-ChIP involves in vivo cross-linking of histones and regulatory proteins to DNA, fragmenting the DNA by sonication, and isolating the protein-DNA...
02:24Regulation of Expression Occurs at Multiple Steps
Gene expression can be regulated at almost every step from gene to protein. Transcription is the step that is most commonly regulated. This involves the binding of proteins to short regulatory sequences on the DNA. This association can either promote or inhibit the transcription of a gene associated with the respective sequence.
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
Transcription results in the generation of precursor (pre-mRNA) that consists of both exons and introns, which needs further processing before being translated to a...
01:23Regulation of Expression at Multiple Steps
The gene expression in cells is regulated at different stages: (i) transcription, (ii) RNA processing, (iii) RNA localization, and (iv) translation. Transcriptional regulation is mediated by regulatory proteins such as transcription factors, activators, or repressors—these control gene expression by initiating or inhibiting the transcription of genes. Once a precursor or pre-mRNA is produced, it undergoes post-transcriptional modification, including 5' capping, splicing, and the addition of a...