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Related Concept Videos

CRISPR and crRNAs02:53

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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.
The CRISPR-Cas system stores a copy of foreign DNA in the host genome and uses it to identify the foreign DNA upon reinfection. CRISPR-Cas has three different...
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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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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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Updated: Feb 22, 2026

Performing an In Vitro Genome-Wide CRISPR Knockout Screen in Chimeric Antigen Receptor T Cells
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CRISPR-DAV: CRISPR NGS data analysis and visualization pipeline.

Xuning Wang1, Charles Tilford1, Isaac Neuhaus1

  • 1Translational Bioinformatics & Computational Genomics.

Bioinformatics (Oxford, England)
|September 30, 2017
PubMed
Summary
This summary is machine-generated.

CRISPR-DAV is a new pipeline for analyzing CRISPR next-generation sequencing data. It efficiently screens gene editing clones using Burrows-Wheeler Aligner and Assembly Based ReAlignment for indel detection.

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Area of Science:

  • Molecular Biology
  • Genomics
  • Bioinformatics

Background:

  • CRISPR/Cas9 gene editing enables precise genomic modifications.
  • Next-generation sequencing (NGS) facilitates high-throughput screening of edited samples.
  • Analyzing CRISPR NGS data requires efficient computational tools.

Purpose of the Study:

  • To develop a high-throughput pipeline for analyzing CRISPR NGS data.
  • To provide a user-friendly tool for screening CRISPR-mediated genomic edits.
  • To enable comprehensive visualization of gene editing outcomes.

Main Methods:

  • Developed the CRISPR Data Analysis and Visualization (CRISPR-DAV) pipeline.
  • Integrated Burrows-Wheeler Aligner for small indel detection.
  • Utilized Assembly Based ReAlignment for large indel detection.

Main Results:

  • CRISPR-DAV enables high-throughput analysis of CRISPR NGS data.
  • The pipeline accurately detects small and large indels.
  • Results are presented through comprehensive charts and interactive alignment views.

Conclusions:

  • CRISPR-DAV simplifies and accelerates the analysis of CRISPR gene editing experiments.
  • The pipeline supports efficient screening of desired clones from large sample sets.
  • This tool advances the application of CRISPR technology in research and development.