AIMC Topic: Viral Proteins

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Expression of rabies virus glycoprotein in the methylotrophic yeast Pichia pastoris.

Biotechnology and applied biochemistry Apr 14, 2016
Rabies is a fatal disease that can be prevented by vaccination. Different approaches were investigated to develop novel human rabies vaccines with improved features compared to the current available vaccines, among them is the use of heterologous gen...
Membrane Glycoproteins Humans Rabies virus Gene Expression Recombinant Proteins Viral Proteins Pichia
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Using support vector machines to identify protein phosphorylation sites in viruses.

Journal of molecular graphics & modelling Dec 24, 2014
Phosphorylation of viral proteins plays important roles in enhancing replication and inhibition of normal host-cell functions. Given its importance in biology, a unique opportunity has arisen to identify viral protein phosphorylation sites. However, ...
Amino Acid Sequence Tyrosine Viral Proteins Serine Molecular Sequence Data Protein Structure, Tertiary Databases, Protein Phosphorylation Phosphoproteins Threonine Support Vector Machine
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IFPTML Multi-Output Model for Anti-Retroviral Compounds Including the Drug Structure and Target Protein Sequence Information.

Journal of chemical information and modeling May 12, 2025
Retroviruses such as HIV cause significant diseases in humans and other organisms, making the discovery of antiretroviral (ARV) drugs a critical priority. While databases like ChEMBL contain valuable information, their complexity poses challenges. Th...
Humans Amino Acid Sequence Machine Learning Viral Proteins Drug Discovery Anti-Retroviral Agents
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Machine learning assisted in Silico discovery and optimization of small molecule inhibitors targeting the Nipah virus glycoprotein.

Scientific reports May 8, 2025
The Nipah virus (NiV), a lethal pathogen from the Paramyxoviridae family, presents a significant global health threat as a result of its high mortality rate and inter-human transmission. This investigation employed in silico methods that were assiste...
Machine Learning Computer Simulation Molecular Docking Simulation Nipah Virus Humans Molecular Dynamics Simulation Drug Discovery Small Molecule Libraries Antiviral Agents Viral Proteins Glycoproteins
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Construction and application of SARS-CoV-2 protein ontology (CoVPO).

PloS one Jan 1, 2025
The emergence of the SARS-CoV-2 virus and the resulting COVID-19 pandemic brought forth an urgent need for an in-depth molecular understanding, organization, and data integration to expedite therapeutic and preventive strategies. An essential approac...
SARS-CoV-2 Biological Ontologies Viral Proteins Humans Pandemics COVID-19
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VirDetect-AI: a residual and convolutional neural network-based metagenomic tool for eukaryotic viral protein identification.

Briefings in bioinformatics Nov 22, 2024
This study addresses the challenging task of identifying viruses within metagenomic data, which encompasses a broad array of biological samples, including animal reservoirs, environmental sources, and the human body. Traditional methods for virus ide...
Viral Proteins Eukaryota Metagenome Metagenomics Genome, Viral Viruses Humans Artificial Intelligence Neural Networks, Computer Convolutional Neural Networks Computational Biology
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DeePhafier: a phage lifestyle classifier using a multilayer self-attention neural network combining protein information.

Briefings in bioinformatics Jul 25, 2024
Bacteriophages are the viruses that infect bacterial cells. They are the most diverse biological entities on earth and play important roles in microbiome. According to the phage lifestyle, phages can be divided into the virulent phages and the temper...
Viral Proteins Algorithms Neural Networks, Computer Computational Biology Bacteriophages
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Potential SARS-CoV-2 nonstructural proteins inhibitors: drugs repurposing with drug-target networks and deep learning.

Frontiers in bioscience (Landmark edition) Apr 1, 2022
BACKGROUND: In the current COVID-19 pandemic, with an absence of approved drugs and widely accessible vaccines, repurposing existing drugs is vital to quickly developing a treatment for the disease.
Humans Pandemics Drug Repositioning COVID-19 Drug Treatment Viral Proteins SARS-CoV-2 Molecular Docking Simulation Deep Learning Network Pharmacology
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ZoomQA: residue-level protein model accuracy estimation with machine learning on sequential and 3D structural features.

Briefings in bioinformatics Jan 17, 2022
MOTIVATION: The Estimation of Model Accuracy problem is a cornerstone problem in the field of Bioinformatics. As of CASP14, there are 79 global QA methods, and a minority of 39 residue-level QA methods with very few of them working on protein complex...
Protein Structure, Quaternary Viral Proteins Protein Structure, Tertiary Sequence Analysis, Protein Humans Machine Learning COVID-19 SARS-CoV-2 Models, Molecular Caspases
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Machine learning for phytopathology: from the molecular scale towards the network scale.

Briefings in bioinformatics Sep 2, 2021
With the increasing volume of high-throughput sequencing data from a variety of omics techniques in the field of plant-pathogen interactions, sorting, retrieving, processing and visualizing biological information have become a great challenge. Within...
Pathogen-Associated Molecular Pattern Molecules Plant Pathology Receptors, Pattern Recognition Protein Interaction Mapping Disease Resistance Plants Plant Diseases Bayes Theorem Gene Expression Regulation Bacterial Proteins Fungal Proteins Support Vector Machine NLR Proteins Host-Pathogen Interactions Protein Serine-Threonine Kinases Viral Proteins
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