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相关概念视频

RNA-seq03:21

RNA-seq

10.0K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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Transfer RNA Synthesis02:36

Transfer RNA Synthesis

11.9K
One of the unique features of tRNA is the presence of modified bases. In some tRNAs, modified bases account for nearly 20% of the total bases in the molecule. Altogether, these unusual bases protect the tRNA from enzymatic degradation by RNases.
Each of these chemical modifications is carried by a specific enzyme, post-transcription. All of these enzymes have unique base and site-specificity. Methylation, the most common chemical modification, is carried by at least nine different enzymes, with...
11.9K
RNA Editing02:23

RNA Editing

9.0K
RNA editing is a post-transcriptional modification where a precursor mRNA (pre-mRNA) nucleotide sequence is changed by base insertion, deletion, or modification. The extent of RNA editing varies from a few hundred bases, in mitochondrial DNA of trypanosomes, to a just single base, in nuclear genes of mammals. Even a single base change in the pre-mRNA can convert a codon for one amino acid into the codon for another amino acid or a stop codon. This type of re-coding can significantly affect the...
9.0K
Ribosome Profiling02:24

Ribosome Profiling

3.5K
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...
3.5K
Next-generation Sequencing03:00

Next-generation Sequencing

88.8K
The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features....
88.8K
Pre-mRNA Processing: Modification of pre-mRNA Ends01:35

Pre-mRNA Processing: Modification of pre-mRNA Ends

9.3K
In eukaryotic cells, transcripts made by RNA polymerase are modified and processed before exiting the nucleus. Unprocessed RNA is called precursor mRNA or pre-mRNA to distinguish it from mature mRNA.
Once about 20-40 ribonucleotides have been joined together by RNA polymerase, a group of enzymes adds a cap to the 5' end of the growing transcript. In this process, a 5' phosphate is replaced by modified guanosine that has a methyl group attached (7-methyl guanosine). This 5' cap helps...
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相关实验视频

Updated: Jul 1, 2025

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications
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2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

Published on: July 10, 2020

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BiPSTP:用于识别具有双向位置特定三核酸倾向的不同RNA修饰的序列特征编码方法.

Mingzhao Wang1, Haider Ali1, Yandi Xu2

  • 1School of Computer Science, Shaanxi Normal University, Xi'an, China.

The Journal of biological chemistry
|March 6, 2024
PubMed
概括

这项研究引入了BiPSTP,一种新的RNA序列编码方法,以改善RNA修饰部位的预测. 使用BiPSTP的mRNAPred模型显示出比现有方法更高的性能.

关键词:
基因组RNA的修饰是RNA的修饰.机器学习是机器学习.预测模型 预测模型序列特征表示 序列特征表示支持矢量机器的支持矢量机器.

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An In Vitro Assay to Detect tRNA-Isopentenyl Transferase Activity
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An In Vitro Assay to Detect tRNA-Isopentenyl Transferase Activity

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A Nonsequencing Approach for the Rapid Detection of RNA Editing
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A Nonsequencing Approach for the Rapid Detection of RNA Editing

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相关实验视频

Last Updated: Jul 1, 2025

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications
05:41

2D-HELS MS Seq: A General LC-MS-Based Method for Direct and de novo Sequencing of RNA Mixtures with Different Nucleotide Modifications

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An In Vitro Assay to Detect tRNA-Isopentenyl Transferase Activity
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An In Vitro Assay to Detect tRNA-Isopentenyl Transferase Activity

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A Nonsequencing Approach for the Rapid Detection of RNA Editing
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A Nonsequencing Approach for the Rapid Detection of RNA Editing

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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.
  • 基因组学就是基因组学.

背景情况:

  • RNA修饰是影响RNA功能的关键的转录后调节机制.
  • 准确识别RNA修饰部位对于理解生物作用至关重要.
  • 现有的RNA序列编码方法在信息表示和特征集成方面存在局限性.

研究的目的:

  • 开发一种新的RNA序列特征表示方法,BiPSTP.
  • 创建一个有效的机器学习模型,mRNAPred,用于预测RNA修饰站点.
  • 为了提高RNA修饰部位识别的准确性和稳定性.

主要方法:

  • 引入了BiPSTP (双向三核酸定位特异性倾向) 用于RNA序列编码.
  • 使用参数 ξ 来捕获位置和顺序信息.
  • 使用支向量机分类器开发了mRNAPred模型.

主要成果:

  • 在确定12种类型的RNA修饰位点方面,mRNAPred模型显著超过了最先进的模型.
  • BiPSTP方法提高了预测模型的稳定性和概括性.
  • BiPSTP显示出从DNA序列中提取特征的潜力,用于预测其他生物修饰.

结论:

  • BiPSTP方法为RNA序列表示提供了一种卓越的方法,用于修改部位预测.
  • mRNAPred提供了一个强大而准确的工具,用于识别多个RNA修饰站点.
  • BiPSTP方法在预测RNA和DNA中的生物修饰部位方面具有广泛的适用性.