Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

CRISPR and crRNAs02:53

CRISPR and crRNAs

19.4K
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...
19.4K
CRISPR/Cas9 Genome Editing01:28

CRISPR/Cas9 Genome Editing

2.3K
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...
2.3K
Homologous Recombination02:31

Homologous Recombination

64.7K
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...
64.7K
CRISPR01:59

CRISPR

58.5K
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...
58.5K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

[Risk factors on the unintentional injuries among rural children aged 0-12 in Shaanxi province].

Zhonghua liu xing bing xue za zhi = Zhonghua liuxingbingxue zazhi·2013
Same author

Adcyap1r1 genotype, posttraumatic stress disorder, and depression among women exposed to childhood maltreatment.

Depression and anxiety·2013
Same author

Current status and challenge of Human Parasitology teaching in China.

Pathogens and global health·2012
Same author

Molecular characterization of heterogeneous mesenchymal stem cells with single-cell transcriptomes.

Biotechnology advances·2012
Same author

Surgical treatment of ossification of the ligamentum flavum associated with dural ossification in the thoracic spine.

Journal of clinical neuroscience : official journal of the Neurosurgical Society of Australasia·2012
Same author

Broadband focusing ultrasonic transducers based on dimpled LiNbO3 plate with inversion layer.

IEEE transactions on ultrasonics, ferroelectrics, and frequency control·2012
Same journal

K-attention: a biologically informed attention operator for data-efficient sequence-based omics modeling.

Briefings in bioinformatics·2026
Same journal

Accurate prediction of asparagine deamidation in biologics using advanced machine learning models.

Briefings in bioinformatics·2026
Same journal

scImmuneCo: a compendium of cell-type-specific functional modules for decoding immune responses from single-cell RNA-seq data.

Briefings in bioinformatics·2026
Same journal

scGenoByte: a GenoByte embedding transformer with biological priors for cell type annotation.

Briefings in bioinformatics·2026
Same journal

FerroScore: a statistical approach for quantifying tumor-related ferroptosis based on omics data.

Briefings in bioinformatics·2026
Same journal

METEOR: a data-adaptive Mendelian randomization method for powerful detection of shared and specific exposures underlying multiple outcomes.

Briefings in bioinformatics·2026
See all related articles

Related Experiment Video

Updated: Mar 7, 2026

CRISPR Guide RNA Cloning for Mammalian Systems
06:48

CRISPR Guide RNA Cloning for Mammalian Systems

Published on: October 2, 2018

73.2K

Benchmarking CRISPR on-target sgRNA design.

Jifang Yan1, Guohui Chuai1, Chi Zhou1

  • 1School of Life Sciences, Tongji University, China.

Briefings in Bioinformatics
|February 17, 2017
PubMed
Summary
This summary is machine-generated.

Benchmarking CRISPR gene editing tools is crucial for efficient single-guide RNA (sgRNA) design. This study systematically evaluates nine sgRNA design tools across diverse cell types, offering quantitative insights for optimal CRISPR application.

More Related Videos

CIRCLE-Seq for Interrogation of Off-Target Gene Editing
08:23

CIRCLE-Seq for Interrogation of Off-Target Gene Editing

Published on: November 1, 2024

1.7K
Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines
10:46

Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines

Published on: June 2, 2018

9.9K

Related Experiment Videos

Last Updated: Mar 7, 2026

CRISPR Guide RNA Cloning for Mammalian Systems
06:48

CRISPR Guide RNA Cloning for Mammalian Systems

Published on: October 2, 2018

73.2K
CIRCLE-Seq for Interrogation of Off-Target Gene Editing
08:23

CIRCLE-Seq for Interrogation of Off-Target Gene Editing

Published on: November 1, 2024

1.7K
Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines
10:46

Dissection of Enhancer Function Using Multiplex CRISPR-based Enhancer Interference in Cell Lines

Published on: June 2, 2018

9.9K

Area of Science:

  • Molecular Biology
  • Genetics
  • Bioinformatics

Background:

  • CRISPR gene editing is widely used but requires efficient single-guide RNA (sgRNA) design.
  • Minimizing off-target effects and maximizing on-target efficiency are key challenges in CRISPR applications.
  • Existing sgRNA design tools lack comprehensive comparative analysis and clear guidelines for their use.

Purpose of the Study:

  • To systematically benchmark the performance of available sgRNA design tools.
  • To identify the applicable scenarios for different CRISPR design tools.
  • To assess the reproducibility of sgRNA design rules across various experimental contexts.

Main Methods:

  • A systematic and unbiased benchmark of nine representative on-target sgRNA design tools was conducted.
  • Six benchmark datasets covering five different cell types were utilized for evaluation.
  • Performance metrics focused on predicting sgRNA efficacy and off-target cleavage were analyzed.

Main Results:

  • The study provides quantitative insights into the predictive performance of nine sgRNA design tools.
  • Comparative analysis revealed variations in tool efficiency and applicability across different cell types.
  • Reproducibility of design rules across datasets and cell types was assessed, highlighting potential limitations.

Conclusions:

  • This benchmark offers valuable quantitative data for selecting appropriate sgRNA design tools.
  • Understanding tool-specific performance is essential for optimizing CRISPR-Cas gene editing experiments.
  • Further research is needed to refine sgRNA design rules and improve tool generalizability.