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相关概念视频

CRISPR01:59

CRISPR

49.9K
Genome editing technologies allow scientists to modify an organism’s DNA via the addition, removal, or rearrangement of genetic material at specific genomic locations. These types of techniques could potentially be used to cure genetic disorders such as hemophilia and sickle cell anemia. One popular and widely used DNA-editing research tool that could lead to safe and effective cures for genetic disorders is the CRISPR-Cas9 system. CRISPR-Cas9 stands for Clustered Regularly Interspaced...
49.9K
Homologous Recombination02:31

Homologous Recombination

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The basic reaction of homologous recombination (HR) involves two chromatids that contain DNA sequences sharing a significant stretch of identity. One of these sequences uses a strand from another as a template to synthesize DNA in an enzyme-catalyzed reaction. The final product is a novel amalgamation of the two substrates. To ensure an accurate recombination of sequences, HR is restricted to the S and G2 phases of the cell cycle. At these stages, the DNA has been replicated already and the...
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相关实验视频

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Electroporation-Based CRISPR-Cas9-Mediated Gene Knockout in THP-1 Cells and Single-Cell Clone Isolation
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基于codon的使用和表达特征显著改善了对CRISPR效率的预测.

Shaked Bergman1, Tamir Tuller2,3

  • 1Department of Biomedical Engineering, Tel-Aviv University, Tel Aviv, Israel.

NPJ systems biology and applications
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概括

对CRISPR指导RNA (gRNA) 的计算设计正在得到改进. 结合基因组位置和基因近距离的新功能增强了预测模型,提高了CRISPR实验的准确性.

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科学领域:

  • 基因组学就是基因组学.
  • 分子生物学分子生物学
  • 生物信息学是一种生物信息学.

背景情况:

  • 克里斯普尔基因组编辑精确,但通过计算设计导向RNA (gRNA) 仍然具有挑战性.
  • 当前的预测模型往往缺乏准确性,仅依赖于目标DNA序列数据.

研究的目的:

  • 开发新的功能,以改善gRNAs的计算设计.
  • 通过结合基因组背景来增强CRISPR实验模型的预测能力.

主要方法:

  • 根据基因表达和代码子使用偏差指数计算出四个新特征.
  • 纳入目标站点基因组位置和接近基因的特征集.
  • 训练有素的预测模型使用这些增强功能集在三种细胞类型的CRISPR数据集上.

主要成果:

  • 这些新功能的性能与425个最先进的功能相提并论,排名在前2-12%.
  • 添加表达特征显著改善了模型r^2高达0.04 (39%的相对增加).
  • 在验证集上实现了高达0.38的平均相关性,各种指标认为重要的特征.

结论:

  • 基因组位置和基因上下文对于gRNA设计的基于序列的特征是有价值的补充.
  • 整合这些特征将促进CRISPR实验的预测,设计和理解.