AIMC Topic: Viruses

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VirusImmu: a novel ensemble machine learning approach for viral immunogenicity prediction.

Briefings in functional genomics
The viruses threats provoke concerns regarding their sustained epidemic transmission, making the development of vaccines particularly important. In the prolonged and costly process of vaccine development, the most important initial step is to identif...

Unveiling the ghost: machine learning's impact on the landscape of virology.

The Journal of general virology
The complexity and speed of evolution in viruses with RNA genomes makes predictive identification of variants with epidemic or pandemic potential challenging. In recent years, machine learning has become an increasingly capable technology for address...

VirDetect-AI: a residual and convolutional neural network-based metagenomic tool for eukaryotic viral protein identification.

Briefings in bioinformatics
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...

Deep Learning and Likelihood Approaches for Viral Phylogeography Converge on the Same Answers Whether the Inference Model Is Right or Wrong.

Systematic biology
Analysis of phylogenetic trees has become an essential tool in epidemiology. Likelihood-based methods fit models to phylogenies to draw inferences about the phylodynamics and history of viral transmission. However, these methods are often computation...

ViralZone 2024 provides higher-resolution images and advanced virus-specific resources.

Nucleic acids research
ViralZone (http://viralzone.expasy.org) is a knowledge repository for viruses that links biological knowledge and databases. It contains data on virion structure, genome, proteome, replication cycle and host-virus interactions. The new update provide...

IPEV: identification of prokaryotic and eukaryotic virus-derived sequences in virome using deep learning.

GigaScience
BACKGROUND: The virome obtained through virus-like particle enrichment contains a mixture of prokaryotic and eukaryotic virus-derived fragments. Accurate identification and classification of these elements are crucial to understanding their roles and...

Identification of viral-mediated pathogenic mechanisms in neurodegenerative diseases using network-based approaches.

Briefings in bioinformatics
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...

A NLP Pipeline for the Automatic Extraction of Microorganisms Names from Microbiological Notes.

Studies in health technology and informatics
According to the "Istituto Superiore di Sanita'" (ISS), hospital infections are the most frequent and serious complication of health care. This constitutes a real health emergency which requires incisive and joint action at all levels of the local an...