通过遗传算法对类 ribozymes 的计算设计
Dimitrios Kaloudas1, Nikolet Pavlova1, Robert Penchovsky2
1Laboratory of Synthetic Biology and Bioinformatics, Faculty of Biology, Sofia University "St. Kliment Ohridski", Sofia, Bulgaria.
Methods in molecular biology (Clifton, N.J.)
|June 22, 2024
概括
全性 рибо酶的计算设计为体外选择提供了一个更快,更准确的替代方案. 这种使用RNA折叠原理的in silico方法的准确性超过了90%,减少了时间和成本.
科学领域:
- 生物化学 生化学
- 计算生物学 计算生物学
- 分子生物学分子生物学
背景情况:
- 在体外选择全性 ribozymes 是由于复杂的程序,不确定的结果,和不需要的序列功能具有挑战性.
- 目前的方法耗时且昂贵,阻碍了快速发展.
研究的目的:
- 为了呈现一个精确的计算设计策略的全osteric ribozymes.
- 为了证明 in silico 设计的效率和准确性,作为 in vitro 选择的替代方案.
主要方法:
- 利用RNA二次结构折叠原理用于计算设计.
- 采用经过实验验证 (EA) 的全元素,随机搜索算法和RNA折叠的分区函数.
- 自动化各种算法与逻辑门进入计算机程序快速序列生成.
主要成果:
- 在Allosteric ribozymes的in silico设计中达到90%以上的准确性.
- 演示了快速生成众多全基序列的能力.
- 通过计算机程序成功自动化设计流程.
结论:
- 计算设计提供了一个非常准确和高效的方法来创建全性 ribozymes.
- 这种in silico方法显著减少了与全性 рибо酶开发相关的时间和成本.
- 消除了传统体外选择的需要,简化了研究过程.
关键词:
亚洛斯的 ribozymes 是一个类型的 ribozyme.生物传感器是一种生物传感器.计算设计 计算设计头核糖酶是一种头核糖酶.在 silico 选择选择中.利博酶是一种 ribozyme.更多相关视频
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相关概念视频
Ribosomal RNA Synthesis
Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
Riboswitches
Riboswitches are non-coding mRNA domains that regulate the transcription and translation of downstream genes without the help of proteins. Riboswitches bind directly to a metabolite and can form unique stem-loop or hairpin structures in response to the amount of the metabolite present. They have two distinct regions – a metabolite-binding aptamer and an expression platform.
The aptamer has high specificity for a particular metabolite which allows riboswitches to specifically regulate...
The aptamer has high specificity for a particular metabolite which allows riboswitches to specifically regulate...
Ribozymes
The term ribozyme is used for RNA that can act as an enzyme. Ribozymes are mainly found in selected viruses, bacteria, plant organelles, and lower eukaryotes. Ribozymes were first discovered in 1982 when Tom Cech’s laboratory observed Group I introns acting as enzymes. This was shortly followed by the discovery of another ribozyme, Ribonulcease P, by Sid Altman’s laboratory. Both Cech and Altman received the Nobel Prize in chemistry in 1989 for their work on ribozymes.
Ribozymes can be...
Ribozymes can be...
Ribosome Profiling
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 helps...
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 helps...
Ribozymes
The term ribozyme is used for RNA that can act as an enzyme. Ribozymes are mainly found in selected viruses, bacteria, plant organelles, and lower eukaryotes. Ribozymes were first discovered in 1982 when Tom Cech’s laboratory observed Group I introns acting as enzymes. This was shortly followed by the discovery of another ribozyme, Ribonulcease P, by Sid Altman’s laboratory. Both Cech and Altman received the Nobel Prize in chemistry in 1989 for their work on ribozymes.
Ribozymes can be...
Ribozymes can be...
Ribosomal RNA Synthesis
Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...
