AIMC Topic: CRISPR-Associated Proteins

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A new strategy for Cas protein recognition based on graph neural networks and SMILES encoding.

Scientific reports Apr 30, 2025
The CRISPR-Cas system, an adaptive immune mechanism found in bacteria and archaea, has evolved into a promising genomic editing tool, with various types of Cas proteins playing a crucial role. In this study, we developed a set of strategies for minin...
Computational Biology Databases, Protein CRISPR-Cas Systems Neural Networks, Computer CRISPR-Associated Proteins Graph Neural Networks
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CasPro-ESM2: Accurate identification of Cas proteins integrating pre-trained protein language model and multi-scale convolutional neural network.

International journal of biological macromolecules Mar 22, 2025
Cas proteins (CRISPR-associated protein) are the core components of the CRISPR-Cas system, playing critical roles in defending against foreign DNA and RNA invasions. Identifying Cas proteins can provide deeper insights into the immune mechanisms of t...
Computational Biology CRISPR-Cas Systems Software Convolutional Neural Networks CRISPR-Associated Proteins Neural Networks, Computer
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Machine Learning-Assisted, Dual-Channel CRISPR/Cas12a Biosensor-In-Microdroplet for Amplification-Free Nucleic Acid Detection for Food Authenticity Testing.

ACS nano Dec 2, 2024
The development of novel detection technology for meat species authenticity is imperative. Here, we developed a machine learning-supported, dual-channel biosensor-in-microdroplet platform for meat species authenticity detection named CC-drop (RISPR/C...
Bacterial Proteins Machine Learning Endodeoxyribonucleases Animals Nucleic Acids Meat CRISPR-Associated Proteins CRISPR-Cas Systems Biosensing Techniques Food Analysis
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Rapid, portable, and sensitive detection of CaMV35S by RPA-CRISPR/Cas12a-G4 colorimetric assays with high accuracy deep learning object recognition and classification.

Talanta Jun 20, 2024
Fast, sensitive, and portable detection of genetic modification contributes to agricultural security and food safety. Here, we developed RPA-CRISPR/Cas12a-G-quadruplex colorimetric assays that can combine with intelligent recognition by deep learning...
Promoter Regions, Genetic CRISPR-Associated Proteins G-Quadruplexes Deep Learning CRISPR-Cas Systems Bacterial Proteins Colorimetry Endodeoxyribonucleases Limit of Detection
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Identification of Family-Specific Features in Cas9 and Cas12 Proteins: A Machine Learning Approach Using Complete Protein Feature Spectrum.

Journal of chemical information and modeling Jun 5, 2024
The recent development of CRISPR-Cas technology holds promise to correct gene-level defects for genetic diseases. The key element of the CRISPR-Cas system is the Cas protein, a nuclease that can edit the gene of interest assisted by guide RNA. Howeve...
CRISPR-Cas Systems CRISPR-Associated Proteins CRISPR-Associated Protein 9 Machine Learning
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Enhanced detection of Listeria monocytogenes using tetraethylenepentamine-functionalized magnetic nanoparticles and LAMP-CRISPR/Cas12a-based biosensor.

Analytica chimica acta Oct 11, 2023
BACKGROUND: Listeria monocytogenes is a pathogenic bacterium that can lead to severe illnesses, especially among vulnerable populations. Therefore, the development of rapid and sensitive detection methods is vital to prevent and manage foodborne dise...
CRISPR-Associated Proteins Limit of Detection Food Microbiology Bacterial Proteins Listeria monocytogenes Endodeoxyribonucleases Biosensing Techniques Nucleic Acid Amplification Techniques CRISPR-Cas Systems Molecular Diagnostic Techniques Magnetite Nanoparticles
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Accurate Diagnosis of Colorectal Cancer Using a Combination of Lectin-Induced Recombinase Polymerase Amplification and CRISPR/Cas12a Assay on a Point-of-Care Testing Platform with Deep Learning Assistant.

Analytical chemistry Jul 1, 2025
Specific glycosylation patterns on exosome surfaces represent novel diagnostic biomarkers for cancer liquid biopsy. Lectins can induce exosome aggregation through multiple bindings with exosomal glycoproteins. In this work, we developed a one-pot lec...
Bacterial Proteins Endodeoxyribonucleases Limit of Detection CRISPR-Cas Systems Animals Humans Exosomes Deep Learning Colorectal Neoplasms Lectins Mice Recombinases Nucleic Acid Amplification Techniques Cell Line, Tumor CRISPR-Associated Proteins Point-of-Care Testing
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Machine learning and statistical classification in CRISPR-Cas12a diagnostic assays.

Biosensors & bioelectronics Jul 1, 2025
CRISPR-based diagnostics have gained increasing attention as biosensing tools able to address limitations in contemporary molecular diagnostic tests. To maximize the performance of CRISPR-based assays, much effort has focused on optimizing the chemis...
Bacterial Proteins Endodeoxyribonucleases CRISPR-Associated Proteins Biosensing Techniques CRISPR-Cas Systems Neural Networks, Computer Machine Learning Humans
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