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相关概念视频

RNA Splicing01:32

RNA Splicing

56.3K
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...
56.3K
Leaky Scanning02:28

Leaky Scanning

5.1K
During most eukaryotic translation processes, the small 40S ribosome subunit scans an mRNA from its 5' end until it encounters the first start AUG codon. The large 60S ribosomal subunit then joins the smaller one to initiate protein synthesis. The location of the translation initiation is largely determined by the nucleotides near the start codon as there may be multiple translation initiation sites present on the mRNA.  Marilyn Kozak discovered that the sequence RCCAUGG (where R...
5.1K
Protein Folding Quality Check in the RER01:29

Protein Folding Quality Check in the RER

3.7K
ER is the primary site for the maturation and folding of soluble and transmembrane secretory proteins. The calnexin cycle is a specific chaperone system that folds and assesses the confirmation of N-glycosylated proteins before they can exit the ER lumen. The primary players of this quality check pipeline are the lectins, ER-resident chaperones, and a glucosyl transferase enzyme. In case the calnexin system in the lumen fails to salvage a misfolded protein, it is transported to the cytoplasm...
3.7K
Alternative RNA Splicing02:18

Alternative RNA Splicing

21.1K
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...
21.1K
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
Bacterial RNA Polymerase00:43

Bacterial RNA Polymerase

29.5K
Unlike eukaryotes, bacteria use a single RNA Polymerase (RNAP) to transcribe all genes. The different subunits of bacterial RNAPhave distinct functions. The multisubunit structure of the bacterial RNAP helps the enzyme to maintain catalytic function, facilitate assembly, interact with DNA and RNA, and self-regulate its activity.
In most genes, the transcription site is a single base present upstream of the coding sequence. Though RNAP is a catalytically efficient enzyme, it does not recognize...
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相关实验视频

Updated: Jul 1, 2025

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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SparseRNAfolD:优化的稀疏RNA伪结无折叠与悬挂考虑.

Mateo Gray1, Sebastian Will2, Hosna Jabbari3

  • 1Department of Biomedical Engineering, University of Alberta, Street, Edmonton, T6G2R3, AB, Canada. mateo2@ualberta.ca.

Algorithms for molecular biology : AMB
|March 3, 2024
PubMed
概括

我们开发了SparseRNAFolD,这是一种快速高效的算法,用于使用最小自由能量 (MFE) 进行RNA二次结构预测,该算法准确地包括悬挂贡献. 与RNA序列的现有算法相比,这种方法提供了更好的记忆和时间效率.

关键词:
角是指一个角.在MFE中,MFE是MFE.这是一个RNARNARNARNARNA.二级结构预测预测二级结构预测空间复杂性 空间复杂性化 (Sparsification) 是一种化的过程.时间复杂度 时间复杂度

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Practical Aspects of Sample Preparation and Setup of 1H R1ρ Relaxation Dispersion Experiments of RNA
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Practical Aspects of Sample Preparation and Setup of 1H R1ρ Relaxation Dispersion Experiments of RNA

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Nanomanipulation of Single RNA Molecules by Optical Tweezers
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相关实验视频

Last Updated: Jul 1, 2025

RNA Secondary Structure Prediction Using High-throughput SHAPE
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Practical Aspects of Sample Preparation and Setup of 1H R1ρ Relaxation Dispersion Experiments of RNA
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Practical Aspects of Sample Preparation and Setup of 1H R1ρ Relaxation Dispersion Experiments of RNA

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Nanomanipulation of Single RNA Molecules by Optical Tweezers
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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:

  • 预测RNA二级结构对于理解RNA功能至关重要.
  • 目前的最小自由能量 (MFE) 方法在较长的序列中面临计算挑战 (时间和空间复杂性).
  • 准确的自由能量计算,包括悬挂贡献,是复杂的和计算上昂贵的.

研究的目的:

  • 为RNA二次结构预测引入一种新,快速和高效的算法.
  • 将准确的悬挂贡献纳入一个分散的MFE预测方法.
  • 为了比较不同的散射实现的性能,用于的贡献.

主要方法:

  • 开发了SparseRNAFolD,这是一个分散的MFE算法,用于预测无伪结的RNA结构.
  • 实施并比较了包括悬挂贡献的三种分散方法.
  • 评估SparseRNAFolD与LinearFold,一个线性时间和空间算法.

主要成果:

  • SparseRNAFolD高效地预测RNA二次结构与MFE和悬挂贡献.
  • 与LinearFold相比,该算法显示了更低的内存消耗和更快的计算速度,用于最多1000个基数的序列.
  • 成功地扩展了散射技术,包括MFE预测中的悬挂贡献.

结论:

  • SparseRNAFolD使用包括悬挂贡献在内的一般能量模型提供了基于MFE的最佳预测.
  • 该算法为高效的RNA结构预测提供了一个实用的解决方案.
  • 这项工作奠定了扩展散散方法包括伪结的基础.