AIMC Topic: Viral Proteins

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QUATgo: Protein quaternary structural attributes predicted by two-stage machine learning approaches with heterogeneous feature encoding.

PloS one Apr 29, 2020
Many proteins exist in natures as oligomers with various quaternary structural attributes rather than as single chains. Predicting these attributes is an essential task in computational biology for the advancement of proteomics. However, the existing...
Protein Domains Viral Proteins Sequence Analysis, Protein Protein Structure, Quaternary Support Vector Machine Proteins Databases, Protein Humans Machine Learning Software Algorithms Animals Computational Biology
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Review and comparative analysis of machine learning-based phage virion protein identification methods.

Biochimica et biophysica acta. Proteins and proteomics Mar 2, 2020
Phage virion protein (PVP) identification plays key role in elucidating relationships between phages and hosts. Moreover, PVP identification can facilitate the design of related biochemical entities. Recently, several machine learning approaches have...
Support Vector Machine Bacteriophages Viral Proteins Virion Machine Learning Algorithms Computational Biology
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Introducing of an integrated artificial neural network and Chou's pseudo amino acid composition approach for computational epitope-mapping of Crimean-Congo haemorrhagic fever virus antigens.

International immunopharmacology Nov 24, 2019
This study was aimed to introduce a novel algorithm for determining linear B- and T-cell epitopes from Crimean-Congo haemorrhagic fever virus (CCHFV) antigens. To this end, 387 approved B- and T-cell epitopes, as well as 331 non-epitope peptides from...
Humans Neural Networks, Computer Computational Biology Support Vector Machine Amino Acid Sequence Datasets as Topic Epitopes, T-Lymphocyte Molecular Docking Simulation Peptide Library Hemorrhagic Fever, Crimean Histocompatibility Antigens Class II Epitopes, B-Lymphocyte Epitope Mapping Hemorrhagic Fever Virus, Crimean-Congo Viral Proteins Antigens, Viral Protein Structure, Tertiary
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Conservation region finding for influenza A viruses by machine learning methods of N-linked glycosylation sites and B-cell epitopes.

Mathematical biosciences Jun 17, 2019
Influenza type A, a serious infectious disease of the human respiratory tract, poses an enormous threat to human health worldwide. It leads to high mortality rates in poultry, pigs, and humans. The primary target identity regions for the human immune...
Epitopes, B-Lymphocyte Hemagglutinin Glycoproteins, Influenza Virus Neuraminidase Viral Proteins Conserved Sequence Humans Machine Learning Influenza A virus Glycosylation Databases, Protein Influenza, Human
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Identifying Phage Virion Proteins by Using Two-Step Feature Selection Methods.

Molecules (Basel, Switzerland) Aug 10, 2018
Accurate identification of phage virion protein is not only a key step for understanding the function of the phage virion protein but also helpful for further understanding the lysis mechanism of the bacterial cell. Since traditional experimental met...
Virion Databases, Protein Analysis of Variance Bacteriophages Viral Proteins ROC Curve Computational Biology Support Vector Machine Algorithms Reproducibility of Results
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Identification of recent cases of hepatitis C virus infection using physical-chemical properties of hypervariable region 1 and a radial basis function neural network classifier.

BMC genomics Dec 6, 2017
BACKGROUND: Identification of acute or recent hepatitis C virus (HCV) infections is important for detecting outbreaks and devising timely public health interventions for interruption of transmission. Epidemiological investigations and chemistry-based...
Computational Biology Hepacivirus Hepatitis C Humans Chemical Phenomena Neural Networks, Computer Viral Proteins
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iPHLoc-ES: Identification of bacteriophage protein locations using evolutionary and structural features.

Journal of theoretical biology Sep 21, 2017
Bacteriophage proteins are viruses that can significantly impact on the functioning of bacteria and can be used in phage based therapy. The functioning of Bacteriophage in the host bacteria depends on its location in those host cells. It is very impo...
Support Vector Machine Evolution, Molecular Models, Biological Intracellular Space Host-Pathogen Interactions Cell Compartmentation Bacteriophages Viral Proteins
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pLoc-mVirus: Predict subcellular localization of multi-location virus proteins via incorporating the optimal GO information into general PseAAC.

Gene Jul 18, 2017
Knowledge of subcellular locations of proteins is crucially important for in-depth understanding their functions in a cell. With the explosive growth of protein sequences generated in the postgenomic age, it is highly demanded to develop computationa...
Gene Ontology Algorithms Web Browser Viral Proteins Computational Biology Intracellular Space Databases, Protein Protein Transport
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Predicting Zoonotic Risk of Influenza A Viruses from Host Tropism Protein Signature Using Random Forest.

International journal of molecular sciences May 25, 2017
Influenza A viruses remain a significant health problem, especially when a novel subtype emerges from the avian population to cause severe outbreaks in humans. Zoonotic viruses arise from the animal population as a result of mutations and reassortmen...
Zoonoses Viral Tropism Disease Outbreaks Host Specificity Influenza in Birds Humans Influenza, Human Models, Theoretical Birds Machine Learning Retrospective Studies Host-Pathogen Interactions Databases, Genetic Influenza A virus Reproducibility of Results Viral Proteins Area Under Curve Animals Orthomyxoviridae Infections
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An improved method for predicting interactions between virus and human proteins.

Journal of bioinformatics and computational biology Jul 10, 2016
The interaction of virus proteins with host proteins plays a key role in viral infection and consequent pathogenesis. Many computational methods have been proposed to predict protein-protein interactions (PPIs), but most of the computational methods ...
Host-Pathogen Interactions Gene Ontology Support Vector Machine Viral Proteins Protein Interaction Mapping Humans Databases, Protein Alphapapillomavirus Reproducibility of Results Amino Acids Computational Biology Hepacivirus
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