AIMC Topic: Viral Proteins

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A Novel Strategy for the Development of Vaccines for SARS-CoV-2 (COVID-19) and Other Viruses Using AI and Viral Shell Disorder.

Journal of proteome research
A model that predicts levels of coronavirus (CoV) respiratory and fecal-oral transmission potentials based on the shell disorder has been built using neural network (artificial intelligence, AI) analysis of the percentage of disorder (PID) in the nuc...

IL6-mediated HCoV-host interactome regulatory network and GO/Pathway enrichment analysis.

PLoS computational biology
During these days of global emergency for the COVID-19 disease outbreak, there is an urgency to share reliable information able to help worldwide life scientists to get better insights and make sense of the large amount of data currently available. I...

Estimating the Binding of Sars-CoV-2 Peptides to HLA Class I in Human Subpopulations Using Artificial Neural Networks.

Cell systems
Epidemiological studies show that SARS-CoV-2 infection leads to severe symptoms only in a fraction of patients, but the determinants of individual susceptibility to the virus are still unknown. The major histocompatibility complex (MHC) class I expos...

Machine-learning approach expands the repertoire of anti-CRISPR protein families.

Nature communications
The CRISPR-Cas are adaptive bacterial and archaeal immunity systems that have been harnessed for the development of powerful genome editing and engineering tools. In the incessant host-parasite arms race, viruses evolved multiple anti-defense mechani...

COVID-19 Coronavirus Vaccine Design Using Reverse Vaccinology and Machine Learning.

Frontiers in immunology
To ultimately combat the emerging COVID-19 pandemic, it is desired to develop an effective and safe vaccine against this highly contagious disease caused by the SARS-CoV-2 coronavirus. Our literature and clinical trial survey showed that the whole vi...

Meta-iPVP: a sequence-based meta-predictor for improving the prediction of phage virion proteins using effective feature representation.

Journal of computer-aided molecular design
Phage virion protein (PVP) perforate the host cell membrane and eventually culminates in cell rupture thereby releasing replicated phages. The accurate identification of PVP is thus a crucial step towards improving our understanding of the biological...

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

PloS one
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...

Review and comparative analysis of machine learning-based phage virion protein identification methods.

Biochimica et biophysica acta. Proteins and proteomics
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...

Conservation region finding for influenza A viruses by machine learning methods of N-linked glycosylation sites and B-cell epitopes.

Mathematical biosciences
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...