相关实验视频
Updated: Jul 17, 2025

13:42
RNA Secondary Structure Prediction Using High-throughput SHAPE
Published on: May 31, 2013
31.5K
线性CoFold和线性CoPartition:用于预测相互作用的RNA分子的二次结构的线性时间算法
Nucleic acids research
|August 31, 2023
概括
新的算法LinearCoFold和LinearCoPartition能够快速准确地预测RNA-RNA相互作用. 这些工具在复杂的RNA结构的速度和准确性方面明显优于现有的方法.
科学领域:
- 计算生物学 计算生物学
- 生物信息学是一种生物信息学.
- 分子生物学分子生物学
背景情况:
- RNA-RNA相互作用对于生物功能至关重要.
- 现有的RNA结构预测工具对于复杂的相互作用往往太慢或过于简单.
研究的目的:
- 开发新的计算工具,以快速准确地预测RNA-RNA相互作用结构.
- 提高现有的RNA结构预测算法的速度和准确性.
主要方法:
- 开发了线性时间中最小自由能量 (MFE) 结构近似的线性CoFold.
- 开发了LinearCoPartition用于分区函数和线性时间的基础配对概率近似.
- 与RNAcofold等现有工具进行性能比较,使用速度,PPV和灵敏度等指标.
主要成果:
- 线性CoFold和线性CoPartition比RNAcofold显著提高了速度 (例如,分别是86.8倍和642.3倍更快).
- 新的方法实现了更高的积极预测值 (PPV) 和对分子间基对的灵敏度.
- 对SARS-CoV-2 gRNA和人类U4 snRNA相互作用的LinearCoFold预测显示与实验数据的相关性比RNAcofold.
结论:
- 线性CoFold和线性CoPartition为预测RNA-RNA相互作用结构提供了一种计算效率高,准确的方法.
- 这些工具在了解RNA功能和疾病机制方面具有潜在的应用,包括病毒与宿主相互作用.
相关概念视频
RNA Structure
4.9K
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...
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...
4.9K
Nucleic Acid Structure
6.2K
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...
DNA Structure
DNA...
6.2K
Translational Regulation
42
Translational regulation in prokaryotes ensures efficient protein synthesis by controlling ribosome access to mRNA. This regulation is mediated by secondary RNA structures, including translational riboswitches, RNA thermometers, and small RNAs (sRNAs), which respond to intracellular and environmental signals to modulate gene expression.Translational RiboswitchesRiboswitches in the leader region of mRNAs can regulate translation by altering the accessibility of the Shine-Dalgarno (SD) sequence,...
42
Nucleic Acids
44.3K
Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes,...
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes,...
44.3K
RNA Stability
33.6K
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
33.6K

