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Endonucleases

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Sensitive fluorescent detection of DNA methyltransferase using nicking endonuclease-mediated multiple primers-like rolling circle amplification.

Biosensors & bioelectronics
Sensitive and reliable detection of DNA methyltransferase (MTase) is of great significance for both early tumor diagnosis and therapy. In this study, a simple, label-free and sensitive DNA MTase-sensing method was developed on the basis of a nicking ...

Prediction of activity and specificity of CRISPR-Cpf1 using convolutional deep learning neural networks.

BMC bioinformatics
BACKGROUND: CRISPR-Cpf1 has recently been reported as another RNA-guided endonuclease of class 2 CRISPR-Cas system, which expands the molecular biology toolkit for genome editing. However, most of the online tools and applications to date have been d...

Optimized CRISPR guide RNA design for two high-fidelity Cas9 variants by deep learning.

Nature communications
Highly specific Cas9 nucleases derived from SpCas9 are valuable tools for genome editing, but their wide applications are hampered by a lack of knowledge governing guide RNA (gRNA) activity. Here, we perform a genome-scale screen to measure gRNA acti...

Revisiting CRISPR/Cas-mediated crop improvement: Special focus on nutrition.

Journal of biosciences
Genome editing (GE) technology has emerged as a multifaceted strategy that instantaneously popularised the mechanism to modify the genetic constitution of an organism. The clustered regularly interspaced short palindromic repeat (CRISPR) and CRISPR-a...

Anti-CRISPR prediction using deep learning reveals an inhibitor of Cas13b nucleases.

Molecular cell
As part of the ongoing bacterial-phage arms race, CRISPR-Cas systems in bacteria clear invading phages whereas anti-CRISPR proteins (Acrs) in phages inhibit CRISPR defenses. Known Acrs have proven extremely diverse, complicating their identification....

Predicting CRISPR/Cas9 Repair Outcomes by Attention-Based Deep Learning Framework.

Cells
As a simple and programmable nuclease-based genome editing tool, the CRISPR/Cas9 system has been widely used in target-gene repair and gene-expression regulation. The DNA mutation generated by CRISPR/Cas9-mediated double-strand breaks determines its ...