AIMC Topic: Protein Processing, Post-Translational

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Systematic Analysis and Prediction of In Situ Cross Talk of O-GlcNAcylation and Phosphorylation.

BioMed research international Oct 27, 2015
Reversible posttranslational modification (PTM) plays a very important role in biological process by changing properties of proteins. As many proteins are multiply modified by PTMs, cross talk of PTMs is becoming an intriguing topic and draws much at...
Proteins Rats Phosphorylation Protein Processing, Post-Translational Dogs Acylation Evolution, Molecular Gene Ontology Humans Amino Acid Motifs Animals Mice
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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 Humans Software Support Vector Machine Amino Acids Cysteine Protein Processing, Post-Translational Proteins
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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 ...
Data Mining Software Design Amino Acid Motifs Protein Processing, Post-Translational Databases, Protein Phosphorylation Support Vector Machine
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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...
Computer Simulation Reproducibility of Results Artificial Intelligence Algorithms Supervised Machine Learning Amino Acid Sequence Proteins Lysine Molecular Sequence Data Amino Acids Binding Sites Internet Computational Biology Succinates Support Vector Machine Protein Processing, Post-Translational
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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...
Databases, Protein Humans Animals Molecular Dynamics Simulation Gene Ontology Amino Acid Sequence Protein Processing, Post-Translational Protein Folding Structure-Activity Relationship Proteins Protein Structure, Quaternary Protein Structure, Secondary Genetic Variation Models, Molecular
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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...
Protein Processing, Post-Translational Amino Acids Sequence Analysis, Protein Algorithms Proteome Humans Glycosylation Artificial Intelligence Software
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Why Protein Modifications Matter for Digestibility: The Case of Ara h 1 Peanut Allergen and Trypsin Cleavage.

Journal of agricultural and food chemistry Aug 20, 2025
Trypsin is the principal intestinal endopeptidase and proteomics digestion tool, yet the impact of protein modifications (PMs) on digestibility and allergenicity remains underexplored. We employed a proteomic approach to assess trypsin cleavage effic...
Humans Proteomics Membrane Proteins Protein Processing, Post-Translational Animals Antigens, Plant Arachis Trypsin Peanut Hypersensitivity Molecular Docking Simulation Swine Glycoproteins Digestion Plant Proteins
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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...
Neural Networks, Computer Deep Learning Humans Protein Processing, Post-Translational Histones 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 Lysine Algorithms Convolutional Neural Networks Computational Biology
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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 ...
Proteins Entropy Deep Learning Computational Biology Protein Processing, Post-Translational
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