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

Homologous Recombination02:31

Homologous Recombination

50.9K
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...
50.9K
CRISPR/Cas9 Genome Editing01:28

CRISPR/Cas9 Genome Editing

142
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...
142
CRISPR01:59

CRISPR

52.7K
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...
52.7K
CRISPR and crRNAs02:53

CRISPR and crRNAs

17.3K
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...
17.3K

You might also read

Related Articles

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

Sort by
Same author

A concise and practical route to Gedatolisib <i>via</i> a continuous-flow Kumada coupling reaction.

RSC advances·2026
Same author

Mechanisms of caries induced by sugars: a narratives review from microbial metabolism to oral ecological imbalance and public health strategies for caries prevention.

Frontiers in cellular and infection microbiology·2026
Same author

Neoadjuvant toripalimab plus celecoxib versus toripalimab monotherapy for mismatch repair-deficient or microsatellite instability-high, locally advanced colorectal cancer (PICC-2): an open-label, multicentre, randomised, phase 2 trial.

The Lancet. Oncology·2026
Same author

Safety and Efficacy of a Sandwich Total Neoadjuvant Therapy Strategy for Low-Risk Distal Locally Advanced Rectal Cancer: Results From the TESS Phase II Trial.

MedComm·2026
Same author

Dissecting PCD-driven molecular landscapes in AML: a multi-omic framework for prognostication and therapeutic targeting.

Clinical and experimental medicine·2026
Same author

From Global to Local: A Multiscale Geographically Weighted Regression Analysis of Bovine Brucellosis Risk Factors.

Transboundary and emerging diseases·2026

Related Experiment Video

Updated: Aug 24, 2025

Efficient Generation of hiPSC Neural Lineage Specific Knockin Reporters Using the CRISPR/Cas9 and Cas9 Double Nickase System
14:46

Efficient Generation of hiPSC Neural Lineage Specific Knockin Reporters Using the CRISPR/Cas9 and Cas9 Double Nickase System

Published on: May 28, 2015

11.2K

BoostMEC: predicting CRISPR-Cas9 cleavage efficiency through boosting models.

Oscar A Zarate1, Yiben Yang1, Xiaozhong Wang2

  • 1Department of Statistics and Data Science, Northwestern University, Evanston, IL, USA.

BMC Bioinformatics
|October 27, 2022
PubMed
Summary

Predicting CRISPR-Cas9 gene editing efficiency is crucial. BoostMEC, a new gradient boosting model, offers accurate and interpretable predictions for single guide RNA selection.

Keywords:
CRISPR-Cas9Feature engineeringInterpretabilityLightGBMMachine learningRegression treessgRNA

More Related Videos

Gene Digital Circuits Based on CRISPR-Cas Systems and Anti-CRISPR Proteins
10:46

Gene Digital Circuits Based on CRISPR-Cas Systems and Anti-CRISPR Proteins

Published on: October 18, 2022

1.8K
Generating CRISPR/Cas9 Mediated Monoallelic Deletions to Study Enhancer Function in Mouse Embryonic Stem Cells
11:31

Generating CRISPR/Cas9 Mediated Monoallelic Deletions to Study Enhancer Function in Mouse Embryonic Stem Cells

Published on: April 2, 2016

14.2K

Related Experiment Videos

Last Updated: Aug 24, 2025

Efficient Generation of hiPSC Neural Lineage Specific Knockin Reporters Using the CRISPR/Cas9 and Cas9 Double Nickase System
14:46

Efficient Generation of hiPSC Neural Lineage Specific Knockin Reporters Using the CRISPR/Cas9 and Cas9 Double Nickase System

Published on: May 28, 2015

11.2K
Gene Digital Circuits Based on CRISPR-Cas Systems and Anti-CRISPR Proteins
10:46

Gene Digital Circuits Based on CRISPR-Cas Systems and Anti-CRISPR Proteins

Published on: October 18, 2022

1.8K
Generating CRISPR/Cas9 Mediated Monoallelic Deletions to Study Enhancer Function in Mouse Embryonic Stem Cells
11:31

Generating CRISPR/Cas9 Mediated Monoallelic Deletions to Study Enhancer Function in Mouse Embryonic Stem Cells

Published on: April 2, 2016

14.2K

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Genetics Engineering

Background:

  • CRISPR-Cas9 gene editing efficiency varies with single guide RNA (sgRNA) properties.
  • sgRNA sequence composition, global properties, and thermodynamics influence cleavage efficiency.
  • Existing deep learning models offer accuracy but lack interpretability.

Purpose of the Study:

  • To develop an interpretable model for predicting CRISPR-Cas9 cleavage efficiency.
  • To identify key features influencing sgRNA performance.
  • To provide a tool for optimized sgRNA design and selection.

Main Methods:

  • Utilized a gradient boosting approach with LightGBM.
  • Developed BoostMEC (Boosting Model for Efficient CRISPR).
  • Benchmarked BoostMEC against 10 existing models on 13 external datasets.

Main Results:

  • BoostMEC demonstrated competitive performance compared to existing models.
  • The model effectively predicts wild-type CRISPR-Cas9 editing efficiency.
  • BoostMEC provides interpretable insights into feature contributions.

Conclusions:

  • BoostMEC offers state-of-the-art predictions for sgRNA design and selection.
  • The conventional machine learning approach provides advantages in interpretability over deep learning models.
  • BoostMEC aids in understanding sequence features that drive CRISPR-Cas9 efficiency.