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相关概念视频

Protein Organization01:13

Protein Organization

137.8K
Overview
137.8K
RNA Structure01:19

RNA Structure

4.8K
The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
4.8K
Protein Folding01:22

Protein Folding

118.1K
Overview
118.1K
Nucleic Acid Structure01:25

Nucleic Acid Structure

6.1K
The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...
6.1K
Protein and Protein Structure02:15

Protein and Protein Structure

79.5K
Proteins are one of the most abundant organic molecules in living systems and have the most diverse range of functions of all macromolecules. Proteins may be structural, regulatory, contractile, or protective. They may serve in transport, storage, or membranes; or they may be toxins or enzymes. Their structures, like their functions, vary greatly. They are all, however, amino acid polymers arranged in a linear sequence.
A protein's shape is critical to its function. For example, an enzyme...
79.5K
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

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相关实验视频

Updated: Jul 3, 2025

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

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具有二次结构和序列配置文件的RNA线程.

Zongyang Du1, Zhenling Peng2, Jianyi Yang2

  • 1Chongqing Key Laboratory of Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, Chongqing 400065, China.

Bioinformatics (Oxford, England)
|February 11, 2024
PubMed
概括

RNAthreader是一种用于RNA线程的新算法,可以提高对齐准确度和速度. 这种方法通过有效检测远程同类学质来增强RNA3D结构建模.

科学领域:

  • 计算生物学是一种计算生物学.
  • 生物信息学是一种生物信息学.
  • 结构生物学是结构生物学.

背景情况:

  • RNA线程识别用于RNA3D结构建模的远程同质性.
  • 目前的RNA对齐方法缓慢,内存密集,缺乏准确性,阻碍了大规模应用.

研究的目的:

  • 开发一种新,高效,准确的RNA线程算法,用于改进RNA3D结构建模.
  • 为了解决现有的RNA对齐方法的局限性.

主要方法:

  • 开发了RNAthreader,这是一种使用RNA二级结构和序列配置文件的新型RNA线程算法.
  • 介绍了一种简化RNA二次结构的方法,将其简化为紧的图表,以提高对齐度和减少内存使用.
  • 采用了两步方法,将整数和动态编程相结合,用于初始和最终的RNA对齐.

主要成果:

  • 与现有方法相比,RNAthreader显示出更高的对齐精度,特别是对于具有伪结的RNA.
  • 使用RNAthreader模板构建的模型在RNA-Puzzles基准测试中显示了较低的平均RMSD.
  • RNAthreader实现了显著的速度改进,在不到两个小时内完成了大约5000个RNA的对齐,比替代品快3-40倍.

更多相关视频

A Protocol for Computer-Based Protein Structure and Function Prediction
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A Protocol for Computer-Based Protein Structure and Function Prediction

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RNA Secondary Structure Prediction Using High-throughput SHAPE
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RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

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相关实验视频

Last Updated: Jul 3, 2025

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

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A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

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RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

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结论:

  • RNAthreader是一个有前途的算法,用于高效和准确的RNA模板检测.
  • 该算法为大规模RNA3D结构建模和同质检测提供了实质性的进步.