AIMC Topic: Mutagenesis

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Deciphering disordered regions controlling mRNA decay in high-throughput.

Nature Apr 23, 2025
Intrinsically disordered regions within proteins drive specific molecular functions despite lacking a defined structure. Although disordered regions are integral to controlling mRNA stability and translation, the mechanisms underlying these regulator...
Humans Machine Learning RNA, Messenger Mutagenesis Protein Biosynthesis RNA Stability High-Throughput Screening Assays Intrinsically Disordered Proteins
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A machine learning enhanced EMS mutagenesis probability map for efficient identification of causal mutations in Caenorhabditis elegans.

PLoS genetics Aug 26, 2024
Chemical mutagenesis-driven forward genetic screens are pivotal in unveiling gene functions, yet identifying causal mutations behind phenotypes remains laborious, hindering their high-throughput application. Here, we reveal a non-uniform mutation rat...
Whole Genome Sequencing Mutagenesis Animals Mutation Caenorhabditis elegans Proteins Chromosome Mapping Kinesins Mutation Rate Caenorhabditis elegans Machine Learning Phenotype Ethyl Methanesulfonate
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Machine learning-guided multi-site combinatorial mutagenesis enhances the thermostability of pectin lyase.

International journal of biological macromolecules Aug 5, 2024
Enhancing the thermostability of enzymes is crucial for industrial applications. Methods such as directed evolution are often limited by the huge sequence space and combinatorial explosion, making it difficult to obtain optimal mutants. In recent yea...
Molecular Dynamics Simulation Polysaccharide-Lyases Enzyme Stability Bacillus licheniformis Temperature Mutagenesis Mutation Mutagenesis, Site-Directed Machine Learning Protein Engineering
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DeepAmes: A deep learning-powered Ames test predictive model with potential for regulatory application.

Regulatory toxicology and pharmacology : RTP Aug 25, 2023
The Ames assay is required by the regulatory agencies worldwide to assess the mutagenic potential risk of consumer products. As well as this in vitro assay, in silico approaches have been widely used to predict Ames test results as outlined in the In...
Mutagens Mutagenesis Mutagenicity Tests Deep Learning
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Mechanistic Task Groupings Enhance Multitask Deep Learning of Strain-Specific Ames Mutagenicity.

Chemical research in toxicology Jul 21, 2023
The Ames test is a gold standard mutagenicity assay that utilizes various strains with and without S9 fraction to provide insights into the mechanisms by which a chemical can mutate DNA. Multitask deep learning is an ideal framework for developing Q...
Mutagenicity Tests Mutagens Mutagenesis Deep Learning Neural Networks, Computer DNA
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Deep learning model accurately classifies metastatic tumors from primary tumors based on mutational signatures.

Scientific reports May 30, 2023
Metastatic propagation is the leading cause of death for most cancers. Prediction and elucidation of metastatic process is crucial for the treatment of cancer. Even though somatic mutations have been linked to tumorigenesis and metastasis, it is less...
Deep Learning Carcinogenesis Mutagenesis Mutation Humans Neoplasms
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Rapid protein stability prediction using deep learning representations.

eLife May 15, 2023
Predicting the thermodynamic stability of proteins is a common and widely used step in protein engineering, and when elucidating the molecular mechanisms behind evolution and disease. Here, we present RaSP, a method for making rapid and accurate pred...
Protein Stability Humans Mutagenesis Proteins Deep Learning Amino Acids Computational Biology
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Multitask Deep Neural Networks for Ames Mutagenicity Prediction.

Journal of chemical information and modeling Sep 6, 2022
The Ames mutagenicity test constitutes the most frequently used assay to estimate the mutagenic potential of drug candidates. While this test employs experimental results using various strains of , the vast majority of the published in silico models ...
Mutagenesis Mutagenicity Tests Computer Simulation Reproducibility of Results Neural Networks, Computer Mutagens
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AI protein structure prediction-based modeling and mutagenesis of a protostome receptor and peptide ligands reveal key residues for their interaction.

The Journal of biological chemistry Aug 30, 2022
The protostome leucokinin (LK) signaling system, including LK peptides and their G protein-coupled receptors, has been characterized in several species. Despite the progress, molecular mechanisms governing LK peptide-receptor interactions remain to b...
Mutagenesis Artificial Intelligence Aplysia Neuropeptides Receptors, Neuropeptide Ligands Animals Amides Protein Conformation
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Forty years of directed evolution and its continuously evolving technology toolbox: A review of the patent landscape.

Biotechnology and bioengineering Jan 7, 2022
Generating functional protein variants with novel or improved characteristics has been a goal of the biotechnology industry and life sciences, for decades. Rational design and directed evolution are two major pathways to achieve the desired ends. Whi...
Gene Library Biotechnology Artificial Intelligence Directed Molecular Evolution Mutagenesis
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