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CRISPR

CRISPR

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...

CRISPR/Cas9 Genome Editing

CRISPR/Cas9 Genome Editing

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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Related Experiment Video

Updated: Jul 31, 2025

CRISPR Gene Editing Tool for MicroRNA Cluster Network Analysis

CRISPR Gene Editing Tool for MicroRNA Cluster Network Analysis

Published on: April 25, 2022

Genome mining for anti-CRISPR operons using machine learning.

Bowen Yang¹, Minal Khatri², Jinfang Zheng¹

¹Department of Food Science and Technology, Nebraska Food for Health Center, University of Nebraska-Lincoln, Lincoln, NE 68508, United States.

Bioinformatics (Oxford, England)

|May 9, 2023

Summary

This summary is machine-generated.

Scientists developed AOminer, a new tool for discovering anti-CRISPR (Acr) operons by analyzing genomic context. This machine learning approach improves upon existing methods for identifying these important viral elements for genome editing applications.

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Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Pooled CRISPR-Based Genetic Screens in Mammalian Cells

Published on: September 4, 2019

Area of Science:

Microbiology
Bioinformatics
Genomics

Background:

Anti-CRISPR (Acr) proteins inhibit prokaryotic CRISPR-Cas immune systems.
Acr genes are often found within operons, co-existing with other Acr genes or phage structural genes.
Existing Acr prediction tools do not leverage this genomic context information.

Purpose of the Study:

To develop a novel computational tool, AOminer, for improved discovery of anti-CRISPR (Acr) operons.
To exploit the genomic context of known Acr genes and their homologs for enhanced prediction.
To provide a machine learning-based approach for identifying Acr operons (AOs).

Main Methods:

Developed AOminer, a machine learning-based software tool.
Trained a two-state hidden Markov model (HMM) to learn conserved genomic context features of Acr operons.
Validated AOminer's performance against existing Acr prediction tools.

Main Results:

AOminer is the first tool specifically designed for Acr operon discovery.
The HMM successfully learned distinguishing features between Acr operons and non-Acr operons.
AOminer achieved a high accuracy of 0.85, outperforming existing Acr prediction tools.
The tool facilitates automated mining of potential Acr operons from genomic data.

Conclusions:

AOminer significantly enhances the discovery of novel anti-CRISPR operons by utilizing genomic context.
The developed tool offers a more accurate and efficient method for identifying Acr genes and operons.
AOminer will accelerate research into controllable CRISPR-Cas genome editing technologies.