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相关概念视频

From DNA to Protein03:06

From DNA to Protein

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The flow of genetic information in cells from DNA to mRNA to protein is described by the central dogma, which states that genes specify the sequence of mRNAs, which in turn specify the sequence of amino acids making up all proteins. The decoding of one molecule to another is performed by specific proteins and RNAs. Because the information stored in DNA is so central to cellular function, it makes intuitive sense that the cell would make mRNA copies of this information for protein synthesis...
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Combinatorial Gene Control02:33

Combinatorial Gene Control

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Combinatorial gene control is the synergistic action of several transcriptional factors to regulate the expression of a single gene. The absence of one or more of these factors may lead to a significant difference in the level of gene expression or repression.
The expression of more than 30,000 genes is controlled by approximately 2000-3000 transcription factors. This is possible because a single transcription factor can recognize more than one regulatory sequence. The specificity in gene...
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tRNA Activation02:26

tRNA Activation

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Aminoacyl-tRNA synthetases are present in both eukaryotes and bacteria. Though eukaryotes have 20 different aminoacyl-tRNA synthetases to couple to 20 amino acids, many bacteria do not have genes for all of these aminoacyl-tRNA synthetases. Despite this, they still use all 20 amino acids to synthesize their proteins. For instance, some bacteria do not have the gene encoding the enzyme that couples glutamine with its partner tRNA. In these organisms, one enzyme adds glutamic acid to all of the...
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DNA as a Genetic Template02:05

DNA as a Genetic Template

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Two structural features of the DNA molecule provide a basis for the mechanisms of heredity: the four nucleotide bases and its double-stranded nature. The Watson-Crick model of double-helical DNA structure, proposed in 1952, drew heavily upon the X-ray crystallography work of researchers Rosalind Franklin and Maurice Wilkins. Watson, Crick, and Wilkins jointly received the Nobel Prize in Physiology or Medicine for their work in 1962. Franklin was, controversially, excluded from the prize for...
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The Central Dogma01:25

The Central Dogma

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Overview
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Conservative Site-specific Recombination and Phase Variation02:53

Conservative Site-specific Recombination and Phase Variation

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Because the DNA segments are cut and reorganized in a direction-specific manner, site-specific recombination has emerged as an efficient genetic engineering technique. Flippase and Cyclization recombinases or Flp and Cre, respectively, are two members of the tyrosine recombinase family derived from bacteriophages, that are used to mediate site-specific DNA insertions, deletions, and targeted expression of proteins in mammalian cell lines.
The recognition sites for Cre recombinase called LoxP...
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相关实验视频

Updated: Sep 9, 2025

Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules
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Protein WISDOM: A Workbench for In silico De novo Design of BioMolecules

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ARCADE:通过激活工程从基础模型进行可控的Codon设计

Jiayi Li1, Litian Liang1, Shiyi Du1

  • 1Ray and Stephanie Lane Computational Biology Department, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, 15217, US.

bioRxiv : the preprint server for biology
|September 2, 2025
PubMed
概括
此摘要是机器生成的。

通过使用激活工程和预训练的基因组模型,ARCADE可以灵活地控制mRNA编码序列设计. 这种方法增强了可编程生物序列设计,用于mRNA疫苗和基因编辑疗法等应用.

关键词:
激活工程可控制的序列生成基因组学基础模型基础模型后期培训mRNA设计

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科学领域:

  • 生物信息学
  • 计算生物学
  • 合成生物学

背景情况:

  • 编码序列设计对于mRNA治疗和基因编辑至关重要.
  • 目前的方法缺乏实现各种设计目标所需的灵活性和控制能力.

研究的目的:

  • 推出ARCADE,一个灵活可控的编码序列生成的新框架.
  • 将激活工程扩展到连续的生物指标,以增强序列设计.

主要方法:

  • ARCADE使用预训练的基因组基础模型进行激活工程.
  • 它在模型的激活空间中使用具有生物意义的语义方向向量.
  • 该框架可以调整连续性质,如代适应指数,最小自由能量和GC含量,而无需重新训练.

主要成果:

  • 与现有方法相比,ARCADE表现出更高的性能和更大的灵活性.
  • 这种方法可以精确控制多个连续的生物指标.

结论:

  • 它代表了可编程生物序列设计的重大进展.
  • 该框架有可能加速新型mRNA疫苗和基因编辑疗法的开发.