AIMC Topic: Lysine

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Machine Learning Modeling of Protein-intrinsic Features Predicts Tractability of Targeted Protein Degradation.

Genomics, proteomics & bioinformatics Dec 6, 2022
Targeted protein degradation (TPD) has rapidly emerged as a therapeutic modality to eliminate previously undruggable proteins by repurposing the cell's endogenous protein degradation machinery. However, the susceptibility of proteins for targeting by...
Lysine Proteolysis Ubiquitination Machine Learning Proteome
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ResSUMO: A Deep Learning Architecture Based on Residual Structure for Prediction of Lysine SUMOylation Sites.

Cells Aug 25, 2022
Lysine SUMOylation plays an essential role in various biological functions. Several approaches integrating various algorithms have been developed for predicting SUMOylation sites based on a limited dataset. Recently, the number of identified SUMOylat...
Deep Learning Neural Networks, Computer Lysine Machine Learning Sumoylation
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Machine-Learning-Enabled Virtual Screening for Inhibitors of Lysine-Specific Histone Demethylase 1.

Molecules (Basel, Switzerland) Dec 10, 2021
A machine learning approach has been applied to virtual screening for lysine specific demethylase 1 (LSD1) inhibitors. LSD1 is an important anti-cancer target. Machine learning models to predict activity were constructed using Morgan molecular finger...
Molecular Structure Machine Learning Lysine Drug Evaluation, Preclinical Enzyme Inhibitors Histone Demethylases Humans Databases, Factual
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An Ensemble Deep Learning based Predictor for Simultaneously Identifying Protein Ubiquitylation and SUMOylation Sites.

BMC bioinformatics Oct 24, 2021
BACKGROUND: Several computational tools for predicting protein Ubiquitylation and SUMOylation sites have been proposed to study their regulatory roles in gene location, gene expression, and genome replication. However, existing methods generally rely...
Sumoylation Ubiquitination Amino Acid Sequence Lysine Deep Learning
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Prediction of lysine formylation sites using support vector machine based on the sample selection from majority classes and synthetic minority over-sampling techniques.

Biochimie Oct 7, 2021
Lysine formylation is a newly discovered and mostly interested type of post-translational modification (PTM) that is generally found on core and linker histone proteins of prokaryote and eukaryote and plays various important roles on the regulation o...
Humans Protein Processing, Post-Translational Lysine Histones Animals Support Vector Machine Acylation
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RAM-PGK: Prediction of Lysine Phosphoglycerylation Based on Residue Adjacency Matrix.

Genes Dec 20, 2020
BACKGROUND: Post-translational modification (PTM) is a biological process that is associated with the modification of proteome, which results in the alteration of normal cell biology and pathogenesis. There have been numerous PTM reports in recent ye...
Amino Acid Sequence Datasets as Topic Glyceric Acids Lysine Support Vector Machine Protein Processing, Post-Translational Algorithms ROC Curve Software
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PupStruct: Prediction of Pupylated Lysine Residues Using Structural Properties of Amino Acids.

Genes Nov 28, 2020
Post-translational modification (PTM) is a critical biological reaction which adds to the diversification of the proteome. With numerous known modifications being studied, pupylation has gained focus in the scientific community due to its significant...
Support Vector Machine Protein Processing, Post-Translational Lysine Databases, Protein Computational Biology Proteome
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HybridSucc: A Hybrid-learning Architecture for General and Species-specific Succinylation Site Prediction.

Genomics, proteomics & bioinformatics Aug 28, 2020
As an important protein acylation modification, lysine succinylation (Ksucc) is involved in diverse biological processes, and participates in human tumorigenesis. Here, we collected 26,243 non-redundant known Ksucc sites from 13 species as the benchm...
Succinic Acid Acylation Species Specificity Lysine ROC Curve Proteome Algorithms Area Under Curve Humans Proteins Neoplasms Amino Acid Sequence Machine Learning
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Accurate prediction of species-specific 2-hydroxyisobutyrylation sites based on machine learning frameworks.

Analytical biochemistry May 28, 2020
Lysine 2-hydroxyisobutyrylation (K) is a newly discovered post-translational modification (PTM) across eukaryotes and prokaryotes in recent years, which plays a significant role in diverse cellular functions. Accurate prediction of K sites is a first...
Protein Processing, Post-Translational Oryza Bryopsida Saccharomyces cerevisiae HeLa Cells Machine Learning Seeds Humans Hydroxybutyrates Species Specificity Lysine
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DeepSuccinylSite: a deep learning based approach for protein succinylation site prediction.

BMC bioinformatics Apr 23, 2020
BACKGROUND: Protein succinylation has recently emerged as an important and common post-translation modification (PTM) that occurs on lysine residues. Succinylation is notable both in its size (e.g., at 100 Da, it is one of the larger chemical PTMs) a...
Deep Learning Citric Acid Cycle Protein Processing, Post-Translational Lysine Binding Sites Proteins Succinates
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