Flu & URI

CoV-UniBind: A Unified Antibody Binding Database for SARS-CoV-2

Since the emergence of SARS-CoV-2, numerous studies have investigated antibody interactions with viral variants in vitro, and several datasets have been curated to compile available protein structures and experimental measurements. However, existing data remain fragmented, limiting their utility for the development and validation of machine learning models for antibody–antigen interaction predicti...

WaveSeekerNet: Accurate Prediction of Influenza A Virus Subtypes and Host Source Using Attention-Based Deep Learning

Influenza A virus (IAV) poses a significant threat to animal health globally, with its ability to overcome species barriers and cause pandemics. Rapid and accurate IAV subtypes and host source prediction is crucial for effective surveillance and pandemic preparedness. Deep learning has emerged as a powerful tool for analyzing viral genomic sequences, offering new ways to uncover hidden patterns as...

An improved deep learning model for immunogenic B epitope prediction

The recognition of B epitopes by B cells of the immune system initiates an immune response that leads to the production of antibodies to combat bacter...

Mapping antigenic evolution of influenza A virus using deep learning-based prediction of hemagglutination inhibition titers

Seasonal influenza remains a significant public health challenge through unpredictable antigenic drift, where accumulated mutations enable immune evas...

Reengineering the antigen optimization process for superior neoantigen vaccine design

Identifying effective neoantigen sequences is essential for enhancing anti-tumor immunity. However, the vast sequence space (>109 possible peptides) a...

From sequence to scaffold: computational design of protein nanoparticle vaccines from AlphaFold2-predicted building blocks

Self-assembling protein nanoparticles are being increasingly utilized in the design of next-generation vaccines due to their ability to induce antibod...

APDeeM: A machine Learning strategy towards Effective Peptide Vaccine Candidates Identification against Different Types of Viruses

Viral infections pose significant global health challenges, underscoring the urgent need for improved medications. Nevertheless, traditional medicinal...

Decoding the interconnected splicing patterns of hepatitis B virus and host using large language and deep learning models

Hepatitis B virus (HBV) infection causes approximately one million deaths annually and remains a major driver of hepatocellular carcinoma. Despite its...

Influ-BERT: A Domain-Adaptive Genomic Language Model for Advancing Influenza A Virus Research

Influenza A Virus (IAV) poses a persistent threat to global public health due to its broad host adaptability, frequent anti-genic variation, and poten...

T-SCAPE: T-cell Immunogenicity Scoring via Cross-domain Aided Predictive Engine

T-cell immunogenicity, the ability of peptide fragments to elicit T-cell responses, is a critical determinant of the safety and efficacy of protein th...

Machine Learning Enables Viral Genome-Agnostic Classification of RNA Virus Infections from Host Transcriptomes

Targeted PCR diagnosis of RNA viruses is sequence dependent, meaning that the accuracy of the assay depends on the identity of the viral sequence. How...

Hollow-fibre biomanufacturing and cell-free engineering of HEK293 extracellular vesicles

Extracellular vesicles (EVs) are lipid-delineated nanoparticles that are produced by most cell types. EVs contain complex molecular cargoes that can h...

Deep Generative Optimization of mRNA Codon Sequences for Enhanced mRNA Translation and Therapeutic Efficacy

Messenger RNA (mRNA) therapeutics show immense promise, but their efficacy is limited by suboptimal protein expression. Here, we present RiboDecode, a...

An AI for an AI: identifying zoonotic potential of avian influenza viruses via genomic machine learning

Avian influenza remains a serious risk to human health via zoonotic transmission, as well as a feasible pandemic threat. Although limited zoonotic cas...

An Immuno-Linguistic Transformer for Multi-Scale Modeling of T-Cell Spatiotemporal Dynamics

Understanding the spatiotemporal dynamics of T-cell clones is a critical challenge in immunology and immunotherapy, with direct implications for cance...

Deciphering the Antigenic Evolution of Seasonal Influenza A Viruses with PREDAC-Transformer: From Antigenic Clustering to Key Site Identification

Seasonal influenza viruses undergo continuous antigenic drift due to mutations in the hemagglutinin (HA) protein, rendering vaccines ineffective and p...

A study on edge devices for image classification of the Tasmanian devil (Sarcophilus harrisii) for vaccine delivery

A target-specific bait dispenser is required for oral bait vaccination of the endangered Tasmanian devil (Sarcophilus harrisii) against the deadly dev...

Multivariate analysis of glycogenes reveals coordinated regulation of immunoglobulin glycosylation in an immortalized human B cell system

While neutralizing ability has traditionally been considered the most important antibody function, appreciation has grown for Fc-mediated ‘extra-neutr...

Benchmarking Large Language Models for Pathogen–Disease Classification in Post-Acute Infection Syndromes

Post-Acute Infection Syndromes (PAIS) are medical conditions that persist following acute infections from pathogens such as SARS-CoV-2, Epstein-Barr v...

Iterative immunogen optimization to focus immune responses on a conserved, subdominant viral epitope

Designing effective vaccination strategies against genetically diverse viruses, such as HIV or influenza, is hindered by the ability of these pathogen...