AIMC Topic: Host-Pathogen Interactions
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Identification of viral-mediated pathogenic mechanisms in neurodegenerative diseases using network-based approaches.
Briefings in bioinformatics
Nov 5, 2021
During the course of a viral infection, virus-host protein-protein interactions (PPIs) play a critical role in allowing viruses to replicate and survive within the host. These interspecies molecular interactions can lead to viral-mediated perturbatio...
Computational prediction of the effect of amino acid changes on the binding affinity between SARS-CoV-2 spike RBD and human ACE2.
Proceedings of the National Academy of Sciences of the United States of America
Oct 19, 2021
The association of the receptor binding domain (RBD) of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike protein with human angiotensin-converting enzyme 2 (hACE2) represents the first required step for cellular entry. SARS-CoV-2 ha...
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...
Receptors, Pattern Recognition
Disease Resistance
Pathogen-Associated Molecular Pattern Molecules
Plant Pathology
Plant Diseases
Gene Expression Regulation
Fungal Proteins
Host-Pathogen Interactions
Viral Proteins
Bacterial Proteins
Protein Interaction Mapping
Support Vector Machine
NLR Proteins
Protein Serine-Threonine Kinases
Plants
Bayes Theorem
Current status and future perspectives of computational studies on human-virus protein-protein interactions.
Briefings in bioinformatics
Sep 2, 2021
The protein-protein interactions (PPIs) between human and viruses mediate viral infection and host immunity processes. Therefore, the study of human-virus PPIs can help us understand the principles of human-virus relationships and can thus guide the ...
Systematic evaluation of machine learning methods for identifying human-pathogen protein-protein interactions.
Briefings in bioinformatics
May 20, 2021
In recent years, high-throughput experimental techniques have significantly enhanced the accuracy and coverage of protein-protein interaction identification, including human-pathogen protein-protein interactions (HP-PPIs). Despite this progress, expe...
Machine Learning Methods for Predicting Human-Adaptive Influenza A Viruses Based on Viral Nucleotide Compositions.
Molecular biology and evolution
Apr 1, 2020
Each influenza pandemic was caused at least partly by avian- and/or swine-origin influenza A viruses (IAVs). The timing of and the potential IAVs involved in the next pandemic are currently unpredictable. We aim to build machine learning (ML) models ...
PVsiRNAPred: Prediction of plant exclusive virus-derived small interfering RNAs by deep convolutional neural network.
Journal of bioinformatics and computational biology
Dec 1, 2019
Plant exclusive virus-derived small interfering RNAs (vsiRNAs) regulate various biological processes, especially important in antiviral immunity. The identification of plant vsiRNAs is important for understanding the biogenesis and function mechanism...
Victors: a web-based knowledge base of virulence factors in human and animal pathogens.
Nucleic acids research
Jan 8, 2019
Virulence factors (VFs) are molecules that allow microbial pathogens to overcome host defense mechanisms and cause disease in a host. It is critical to study VFs for better understanding microbial pathogenesis and host defense mechanisms. Victors (ht...
Targeting Virus-host Protein Interactions: Feature Extraction and Machine Learning Approaches.
Current drug metabolism
Jan 1, 2019
BACKGROUND: Targeting critical viral-host Protein-Protein Interactions (PPIs) has enormous application prospects for therapeutics. Using experimental methods to evaluate all possible virus-host PPIs is labor-intensive and time-consuming. Recent growt...
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