AIMC Topic: Protein Processing, Post-Translational

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MDD-SOH: exploiting maximal dependence decomposition to identify S-sulfenylation sites with substrate motifs.

Bioinformatics (Oxford, England) Sep 26, 2015
UNLABELLED: S-sulfenylation (S-sulphenylation, or sulfenic acid), the covalent attachment of S-hydroxyl (-SOH) to cysteine thiol, plays a significant role in redox regulation of protein functions. Although sulfenic acid is transient and labile, most ...
Amino Acid Motifs Sequence Analysis, Protein Sulfur Acids Proteins Amino Acids Cysteine Software Support Vector Machine Protein Processing, Post-Translational Humans
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jEcho: an Evolved weight vector to CHaracterize the protein's posttranslational modification mOtifs.

Interdisciplinary sciences, computational life sciences Aug 6, 2015
Protein's posttranslational modification (PTM) represents a major dynamic regulation of protein functions after the translation of polypeptide chains from mRNA molecule. Compared with the costly and labor-intensive wet laboratory characterization of ...
Databases, Protein Support Vector Machine Phosphorylation Software Design Data Mining Protein Processing, Post-Translational Amino Acid Motifs
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Accurate in silico identification of protein succinylation sites using an iterative semi-supervised learning technique.

Journal of theoretical biology Apr 2, 2015
As a widespread type of protein post-translational modifications (PTMs), succinylation plays an important role in regulating protein conformation, function and physicochemical properties. Compared with the labor-intensive and time-consuming experimen...
Protein Processing, Post-Translational Proteins Amino Acids Internet Supervised Machine Learning Molecular Sequence Data Amino Acid Sequence Lysine Binding Sites Succinates Reproducibility of Results Artificial Intelligence Computational Biology Algorithms Support Vector Machine Computer Simulation
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Types and effects of protein variations.

Human genetics Jan 24, 2015
Variations in proteins have very large number of diverse effects affecting sequence, structure, stability, interactions, activity, abundance and other properties. Although protein-coding exons cover just over 1 % of the human genome they harbor an di...
Protein Structure, Secondary Structure-Activity Relationship Protein Folding Models, Molecular Protein Processing, Post-Translational Amino Acid Sequence Humans Protein Structure, Quaternary Molecular Dynamics Simulation Genetic Variation Proteins Animals Gene Ontology Databases, Protein
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GlycoMine: a machine learning-based approach for predicting N-, C- and O-linked glycosylation in the human proteome.

Bioinformatics (Oxford, England) Jan 6, 2015
MOTIVATION: Glycosylation is a ubiquitous type of protein post-translational modification (PTM) in eukaryotic cells, which plays vital roles in various biological processes (BPs) such as cellular communication, ligand recognition and subcellular reco...
Humans Artificial Intelligence Protein Processing, Post-Translational Software Algorithms Amino Acids Sequence Analysis, Protein Proteome Glycosylation
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A deep learning model for prediction of lysine crotonylation sites by fusing multi-features based on multi-head self-attention mechanism.

Scientific reports May 29, 2025
Lysine crotonylation (Kcr) is an important post-translational modification, which is present in both histone and non-histone proteins, and plays a key role in a variety of biological processes such as metabolism and cell differentiation. Therefore, r...
Histones Humans Neural Networks, Computer Deep Learning Protein Processing, Post-Translational Natural Language Processing Lysine
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MlyPredCSED: based on extreme point deviation compensated clustering combined with cross-scale convolutional neural networks to predict multiple lysine sites in human.

Briefings in bioinformatics Mar 4, 2025
In post-translational modification, covalent bonds on lysine and attached chemical groups significantly change proteins' physical and chemical properties. They shape protein structures, enhance function and stability, and are vital for physiological ...
Humans Neural Networks, Computer Software Cluster Analysis Protein Processing, Post-Translational Proteins Algorithms Convolutional Neural Networks Computational Biology Lysine
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Sul-BertGRU: an ensemble deep learning method integrating information entropy-enhanced BERT and directional multi-GRU for S-sulfhydration sites prediction.

Bioinformatics (Oxford, England) Mar 4, 2025
MOTIVATION: S-sulfhydration, a crucial post-translational protein modification, is pivotal in cellular recognition, signaling processes, and the development and progression of cardiovascular and neurological disorders, so identifying S-sulfhydration ...
Protein Processing, Post-Translational Proteins Entropy Deep Learning Computational Biology
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Enhanced O-glycosylation site prediction using explainable machine learning technique with spatial local environment.

Bioinformatics (Oxford, England) Feb 4, 2025
MOTIVATION: The accurate prediction of O-GlcNAcylation sites is crucial for understanding disease mechanisms and developing effective treatments. Previous machine learning (ML) models primarily relied on primary or secondary protein structural and re...
Glycosylation Protein Processing, Post-Translational Proteins Neural Networks, Computer Machine Learning Computational Biology
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Personalized treatment decision-making using a machine learning-derived lactylation signature for breast cancer prognosis.

Frontiers in immunology Jan 1, 2025
BACKGROUND: Breast cancer is a heterogeneous malignancy with complex molecular characteristics, making accurate prognostication and treatment stratification particularly challenging. Emerging evidence suggests that lactylation, a novel post-translati...
Precision Medicine Prognosis Clinical Decision-Making Humans Biomarkers, Tumor Machine Learning Female Lymphocytes, Tumor-Infiltrating Breast Neoplasms Protein Processing, Post-Translational Tumor Microenvironment
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