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相关概念视频

Regulated mRNA Transport02:22

Regulated mRNA Transport

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In eukaryotes, transcription and translation are compartmentalized; an mRNA is first synthesized in the nucleus and then selectively transported to the cytoplasm for protein synthesis. Before transport, a pre-mRNA undergoes several steps of post-transcriptional modifications including splicing, 5' capping, and the addition of a poly-adenine tail. Various proteins bind to the pre-mRNA during these modifications. The mRNA transport takes place with the help of multiple proteins playing...
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Ribosome Profiling02:24

Ribosome Profiling

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Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
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Regulation of Expression at Multiple Steps01:23

Regulation of Expression at Multiple Steps

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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...
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Leaky Scanning02:28

Leaky Scanning

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During most eukaryotic translation processes, the small 40S ribosome subunit scans an mRNA from its 5' end until it encounters the first start AUG codon. The large 60S ribosomal subunit then joins the smaller one to initiate protein synthesis. The location of the translation initiation is largely determined by the nucleotides near the start codon as there may be multiple translation initiation sites present on the mRNA.  Marilyn Kozak discovered that the sequence RCCAUGG (where R...
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相关实验视频

Updated: Jun 27, 2025

Visualization of Endoplasmic Reticulum Localized mRNAs in Mammalian Cells
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mRNA-CLA:一种可解释的深度学习方法,用于预测mRNA亚细胞局部化.

Yifan Chen1, Zhenya Du2, Xuanbai Ren3

  • 1Institute of Artificial Intelligence Application, College of Computer and Information Engineering, Central South University of Forestry and Technology, Changsha, Hunan 410004, China.

Methods (San Diego, Calif.)
|May 5, 2024
PubMed
概括

这项研究介绍了mRNA-CLA,这是一个深度学习框架,用于预测细胞内的信使RNA (mRNA) 位置. 这种新的方法准确地注释了多个细胞部位,改进了现有的预测方法.

关键词:
模型的解释性 模型的解释性自我注意力权重重.序列分析是指进行序列分析.亚细胞局部化的局部化.

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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.
  • 计算生物学 计算生物学

背景情况:

  • 使者RNA (mRNA) 在基因调节和蛋白质合成中起着至关重要的作用.
  • 准确预测mRNA亚细胞定位是必不可少的,但目前的方法是有限的,特别是多标签注释.
  • 提高多个局部化的预测准确性和能力是转录后基因调节研究的一个关键挑战.

研究的目的:

  • 为mRNA开发一个创新的多标签亚细胞局部化预测框架.
  • 为了提高预测mRNA分子位于细胞内的位置的准确性和范围.
  • 为分析与本地化相关的mRNA序列特征提供一个更易于解释的模型.

主要方法:

  • 使用深度学习方法开发了mRNA-CLA框架.
  • 整合了多头自我注意机制,用于序列分析.
  • 使用多尺度卷积层进行特征提取和位置重量矩阵 (PWM) 进行解释.

主要成果:

  • 与现有方法相比,mRNA-CLA模型表现出优越的性能.
  • 成功注释了具有多个亚细胞局部化的mRNA序列.
  • 通过基层分析确定了与不同亚细胞局部化部位相关的核酸特异性.

结论:

  • 拟议的mRNA-CLA框架显著推进了mRNA亚细胞局部化的预测.
  • 用自我注意的深度学习方法提供了一个强大而可解释的解决方案.
  • 这项工作为了解转录后基因调节和mRNA动态提供了有价值的工具.