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相关概念视频

Alternative RNA Splicing02:18

Alternative RNA Splicing

21.0K
Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
21.0K
RNA Splicing01:32

RNA Splicing

56.0K
Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
56.0K
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

2.7K
2.7K
Chromatin Structure Regulates pre-mRNA Processing02:41

Chromatin Structure Regulates pre-mRNA Processing

6.9K
In eukaryotic cells, nascent mRNA transcripts need to undergo many post-transcriptional modifications to reach the cell cytoplasm and translate into functional proteins. For a long time, transcription and pre-mRNA processing were considered two independent events that occur sequentially in the cell. However, it has now been well established that transcription and pre-mRNA processing are two simultaneous processes that are precisely regulated inside the cell.
The chromatin structure, especially...
6.9K
Nonsense-mediated mRNA Decay02:27

Nonsense-mediated mRNA Decay

10.5K
The Upf proteins that carry out nonsense-mediated decay (NMD) are found in all eukaryotic organisms, including humans. Each protein has an individual role, but they need to work in collaboration. Upf1 is an ATP-dependent RNA helicase that unwinds the RNA helix. Because Upf1 can unwind any RNA, Upf2 and Upf3 are required to help Upf1 discriminate between nonsense and normal mRNAs.
Usually, Upf3 binds to an Exon Junction Complex (EJC) at mRNA splice sites. If a ribosome fully translates the mRNA,...
10.5K
Pre-mRNA Processing: RNA Splicing01:36

Pre-mRNA Processing: RNA Splicing

5.2K
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相关实验视频

Updated: Jun 4, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

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机器学习优化了替代拼接的有针对性的检测.

Kevin Yang1,2,3, Nathaniel Islas4, San Jewell1

  • 1Department of Genetics, University of Pennsylvania, Philadelphia, PA 19104, USA.

Nucleic acids research
|December 27, 2024
PubMed
概括
此摘要是机器生成的。

局部拼接变异测序 (LSV-seq) 通过丰富拼接读数来改善转录组分析. 这种向RNA-seq方法提供了高灵敏度,并发现了具有较低测序深度的新拼接事件.

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Detection of Alternative Splicing During Epithelial-Mesenchymal Transition
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Detection of Alternative Splicing During Epithelial-Mesenchymal Transition

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

Published on: June 24, 2021

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相关实验视频

Last Updated: Jun 4, 2025

Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

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Detection of Alternative Splicing During Epithelial-Mesenchymal Transition
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Detection of Alternative Splicing During Epithelial-Mesenchymal Transition

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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data
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Identification of Alternative Splicing and Polyadenylation in RNA-seq Data

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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:

  • RNA测序 (RNA-seq) 是转录组分析的标准工具.
  • 然而,RNA-seq具有固有的偏差,限制了替代拼接事件的准确检测和量化.

研究的目的:

  • 开发一种高效的向RNA测序方法,以提高替代拼接的检测和量化.
  • 为了解决标准RNA-seq在捕获拼接变异方面的局限性.

主要方法:

  • 引入了局部剪接变异测序 (LSV-seq),一种向的RNA-seq方法.
  • LSV-seq使用由Optimal Prime机器学习算法设计的启动器进行多重反转录.
  • 利用深度学习预测来针对现有RNA-seq数据中覆盖率低的拼接事件.

主要成果:

  • LSV-seq显示了高的目标捕获率和与标准RNA-seq.一致性.
  • 与传统的RNA-seq.相比,该方法需要显著降低测序深度.
  • 通过针对GTEx数据中的低覆盖事件,成功识别了数百个新的组织特异拼接事件.

结论:

  • LSV-seq为量化替代拼接事件提供了高度敏感和高效的方法.
  • 这种技术可以实现高通量分析和发现拼接变异.
  • LSV-seq克服了标准RNA-seq的局限性,用于全面的拼接分析.