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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

56.1K
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...
56.1K
Chromatin Structure and RNA Splicing02:41

Chromatin Structure and RNA Splicing

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Chromatin Structure Regulates pre-mRNA Processing02:41

Chromatin Structure Regulates pre-mRNA Processing

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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...
7.0K
Nonsense-mediated mRNA Decay02:27

Nonsense-mediated mRNA Decay

10.6K
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,...
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Pre-mRNA Processing: RNA Splicing01:36

Pre-mRNA Processing: RNA Splicing

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相关实验视频

Updated: Jun 11, 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

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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, USA.

bioRxiv : the preprint server for biology
|October 10, 2024
PubMed
概括
此摘要是机器生成的。

局部拼接变异测序 (LSV-seq) 为分析替代拼接提供了一种敏感的方法. 这种向RNA测序方法提高了连接事件的检测和量化,即使测序深度较低.

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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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相关实验视频

Last Updated: Jun 11, 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

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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.
  • 由于固有的偏见,RNA-seq在全面检测和量化替代拼接方面面临着挑战.
  • 对替代拼接的准确分析对于理解基因表达和功能至关重要.

研究的目的:

  • 开发一种高效的向RNA测序方法,以改进替代拼接分析.
  • 为了提高拼接信息的检测和量化,交叉跨度阅读.
  • 在替代拼接研究中解决标准RNA-seq的局限性.

主要方法:

  • 引入局部剪接变异测序 (LSV-seq),一种向的RNA-seq技术.
  • 使用多重反转录与接事件附近定的开头.
  • 采用Optimal Prime,这是一个用于初始设计的机器学习算法.
  • 应用深度学习拼接代码预测以针对低覆盖事件.

主要成果:

  • LSV-seq显示了高的目标捕获率和与标准RNA-seq.的一致性.
  • 该方法在显著降低测序深度的情况下,实现了显著的灵敏度改善.
  • 通过LSV-seq在GTEx数据中发现了数百种新的组织特异性拼接事件.
  • 实现了非常灵敏的拼接事件的高通量量化.

结论:

  • LSV-seq是一种高效和敏感的方法,用于有针对性的替代拼接分析.
  • 该技术克服了标准RNA-seq的局限性,为拼接变异提供了更深入的见解.
  • LSV-seq促进了组织特定拼接事件的高通量发现.