AIMC Topic: Enzymes

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Challenges in the annotation of pseudoenzymes in databases: the UniProtKB approach.

The FEBS journal Nov 3, 2019
The universal protein knowledgebase (UniProtKB) collects and centralises functional information on proteins across a wide range of species. In addition to the functional information added to all protein entries, for enzymes, which represent 20-40% of...
Humans Knowledge Bases Databases, Protein Enzymes
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Inferring Gene Regulatory Networks of Metabolic Enzymes Using Gradient Boosted Trees.

IEEE journal of biomedical and health informatics Jul 30, 2019
Metabolic reprogramming is a hallmark of cancer. In cancer cells, transcription factors (TFs) govern metabolic reprogramming through abnormally increasing or decreasing the transcription rate of metabolic enzymes, which provides cancer cells growth a...
Humans Machine Learning Transcriptome Gene Regulatory Networks Algorithms Gene Expression Profiling Lung Neoplasms Transcription Factors Enzymes
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Prediction of Enzyme Function Based on Three Parallel Deep CNN and Amino Acid Mutation.

International journal of molecular sciences Jun 11, 2019
During the past decade, due to the number of proteins in PDB database being increased gradually, traditional methods cannot better understand the function of newly discovered enzymes in chemical reactions. Computational models and protein feature rep...
Enzymes Animals Databases, Protein Mutation Amino Acid Sequence Humans Neural Networks, Computer
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Enzyme classification using multiclass support vector machine and feature subset selection.

Computational biology and chemistry Aug 31, 2017
Proteins are the macromolecules responsible for almost all biological processes in a cell. With the availability of large number of protein sequences from different sequencing projects, the challenge with the scientist is to characterize their functi...
Enzymes Support Vector Machine
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Predicting the Enzymatic Hydrolysis Half-lives of New Chemicals Using Support Vector Regression Models Based on Stepwise Feature Elimination.

Molecular informatics Jun 19, 2017
The enzymatic hydrolysis of chemicals, which is important for in vitro drug metabolism assays, is an important indicator of drug stability profiles during drug discovery and development. Herein, we employed a stepwise feature elimination (SFE) method...
Hydrolysis Algorithms Quantitative Structure-Activity Relationship Support Vector Machine Enzymes
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Extracting drug-enzyme relation from literature as evidence for drug drug interaction.

Journal of biomedical semantics Mar 7, 2016
BACKGROUND: Information about drug-drug interactions (DDIs) is crucial for computational applications such as pharmacovigilance and drug repurposing. However, existing sources of DDIs have the problems of low coverage, low accuracy and low agreement....
Pharmaceutical Preparations Drug Interactions Data Mining Biological Ontologies Enzymes Machine Learning Protein Binding
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mycoCLAP, the database for characterized lignocellulose-active proteins of fungal origin: resource and text mining curation support.

Database : the journal of biological databases and curation Mar 8, 2015
Enzymes active on components of lignocellulosic biomass are used for industrial applications ranging from food processing to biofuels production. These include a diverse array of glycoside hydrolases, carbohydrate esterases, polysaccharide lyases and...
Enzymes Lignin Natural Language Processing Genes, Fungal Databases, Genetic Data Mining Fungal Proteins Data Curation
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Discrimination of acidic and alkaline enzyme using Chou's pseudo amino acid composition in conjunction with probabilistic neural network model.

Journal of theoretical biology Oct 22, 2014
Enzyme catalysis is one of the most essential and striking processes among of all the complex processes that have evolved in living organisms. Enzymes are biological catalysts, which play a significant role in industrial applications as well as in me...
Sequence Analysis, Protein Neural Networks, Computer Algorithms Protein Folding Databases, Protein Enzymes Models, Chemical
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Engineering catalytically promiscuous enzymes to serve new functions.

Biotechnology advances Sep 1, 2025
Catalytic promiscuity in enzymes refers to their ability to catalyze multiple chemically distinct reactions in addition to their native activity. The increasing discovery of additional enzymes exhibiting catalytic promiscuity has underscored the sign...
Catalysis Protein Engineering Enzymes Biocatalysis Substrate Specificity
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AI-driven de novo enzyme design: Strategies, applications, and future prospects.

Biotechnology advances Sep 1, 2025
Enzymes are indispensable for biological processes and diverse applications across industries. While top-down modification strategies, such as directed evolution, have achieved remarkable success in optimizing existing enzymes, bottom-up de novo enzy...
Enzymes Artificial Intelligence Protein Engineering
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