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Related Concept Videos

CRISPR/Cas9 Genome Editing01:28

CRISPR/Cas9 Genome Editing

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The CRISPR-Cas system serves as a bacterial defense mechanism against invading genetic elements such as viruses and plasmids, forming the foundation for its adaptation as a powerful genome-editing tool. Originally discovered in prokaryotes, this system has been repurposed to revolutionize genetic engineering across a wide range of organisms, including plants, animals, and humans. The core component, Cas9, is an endonuclease derived from Streptococcus pyogenes, capable of introducing...
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Bacteria and archaea are susceptible to viral infections just like eukaryotes; therefore, they have developed a unique adaptive immune system to protect themselves. Clustered regularly interspaced short palindromic repeats and CRISPR-associated proteins (CRISPR-Cas) are present in more than 45% of known bacteria and 90% of known archaea.
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CRISPR01:59

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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...
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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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CRISPR-Analytics (CRISPR-A): A platform for precise analytics and simulations for gene editing.

Marta Sanvicente-García1, Albert García-Valiente1, Socayna Jouide2

  • 1Department of Medicine and Life Sciences, Universitat Pompeu Fabra, Barcelona, Spain.

Plos Computational Biology
|May 30, 2023
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Summary

CRISPR-Analytics (CRISPR-A) is a new tool for analyzing gene editing outcomes. It offers higher accuracy and broader functionality than existing methods, aiding experimental design and analysis for various gene editing techniques.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • Current gene editing characterization tools lack precision in quantifying edit proportions.
  • Accurate assessment of gene editing outcomes is crucial for experimental success and clinical applications.

Purpose of the Study:

  • To develop a comprehensive and versatile genome editing web application and Nextflow pipeline, named CRISPR-Analytics (CRISPR-A).
  • To enhance the accuracy and expand the functionality of gene editing analysis.
  • To support gene editing experimental design and analysis across diverse methodologies.

Main Methods:

  • CRISPR-Analytics incorporates mock-based noise correction and spike-in calibrated amplification bias reduction.
  • The tool features advanced interactive graphics for data visualization.
  • A simulation module assesses experimental design by predicting gene editing results.

Main Results:

  • CRISPR-A achieves higher accuracy compared to existing gene editing analysis tools.
  • The application provides robust analysis for sensitive cases, including clinical samples and low editing efficiencies.
  • CRISPR-A supports various gene editing techniques like base editing (BE), primer editing (PE), and homology-directed repair (HDR) without requiring specific experimental approach details.

Conclusions:

  • CRISPR-Analytics offers a versatile and accurate solution for gene editing characterization.
  • The tool enhances experimental design and analysis, improving reliability for sensitive applications.
  • CRISPR-A is broadly applicable to diverse gene editing strategies, simplifying analysis workflows.