Hepatitis

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 pathogens to mutate and readily evade immune control. While these viruses contain conserved regions that cannot easily mutate without affecting viral fitness, these sites are subdominant, meaning that they are not the primary target of immune responses elici...

Ultrahigh throughput screening to train generative protein models for engineering specificity into unspecific peroxygenases

Enzyme engineering is central to developing biocatalysts with improved activity and specificity, yet traditional approaches are often limited by the scale of experimental screening. Here we combine ultrahigh-throughput microfluidic droplet screening with generative machine learning to engineer specificity into an unspecific peroxygenase (UPO) from Aspergillus brasiliensis (AbrUPO). A library of 5e...

Viral protease-Initiated Pyroptosis Activator mRNA therapy as a Universal Antiviral Strategy

Although therapeutic drugs targeting gasdermin (GSDM)-mediated pyroptosis have made remarkable progress in treating various diseases, their potential ...

Predicting Future SARS-CoV-2 Mutations using Deep Learning

SARS-CoV-2 continues to spread over the world steadily as opposed to many earlier estimations that it would disappear in less than two years. Even tho...

Autonomous Liquid-handling Robotics Scripting for Accessible and Responsible Protein Engineering

Laboratory automation enhances experimental throughput and reproducibility, yet widespread adoption is constrained by the expertise required for robot...

TEIP: A Compact, Open-Source Framework for Predicting Tumor Epitope Immunogenicity in Glioblastoma Using Deep Learning and Multi-Modal Biological Features

This work introduces a modular, open-source computational pipeline for glioblastoma (GBM) vaccine design that integrates omics-based OIP5 target disco...

SIMAIS: A swarm intelligence inspired biosensor for rapid protein detection

Swarm intelligence, the collective behaviour of animals such as birds, fish, and ants, arises from simple local interactions and enables survival, eff...

A Computational Pipeline for Glioblastoma Vaccine Development: Integrating Novel Omics-Driven OIP5 Target Discovery to Create a Deep Learning-Based Immunogenicity Framework for Personalized Immunotherapy

This work introduces a modular, open-source computational pipeline for glioblastoma (GBM) vaccine design that integrates omics-based OIP5 target disco...

Deep Mediation Analysis for Multimodal Genotype-Imaging Associations with Disease Phenotypes

Both genotype and imaging data carry entangled information about the phenotypes. Associations between genotypes and phenotypes can be manifested or ab...

PocketX: Preference Alignment for Protein Pockets Design through Group Relative Policy Optimization

Designing protein pockets that target specific ligands is crucial for drug discovery and enzyme engineering. Although deep generative models show prom...

Phenotypic Screening Coupled with AI-Driven Target Deconvolution Identifies α-Terthienyl as a Dual DPP-IV/HSD17β13 Modulator with Efficacy in a Mouse Model of MASLD

Metabolic dysfunction-associated steatotic liver disease (MASLD) is a highly prevalent condition characterized by fat build-up in the liver and ranges...

scE2TM improves single-cell embedding interpretability and reveals cellular perturbation signatures

Single-cell RNA sequencing technologies have revolutionized our understanding of cellular heterogeneity, yet computational methods often struggle to b...

A Generalizable Machine Learning Framework for cfDNA based Early Detection of Hepatocellular Carcinoma: a Feasibility Study with Preclinical Validation

Early detection of hepatocellular carcinoma (HCC) is critical for improving patient outcomes, yet current screening tools lack sensitivity and specifi...

Cellular interactions in the sentinel lymph node predict melanoma recurrence

Melanoma outcomes have dramatically improved over the past decade, but some patients still experience disease recurrence, particularly those who prese...

VaxjoGNN: A Graph Neural Network for Ontology-Grounded Vaccine Adjuvant Recommendation

The selection of an effective adjuvant is a critical bottleneck in vaccine development, particularly for emerging diseases where experimental data is ...

SYSTEMS AND NETWORK BIOLOGY ANALYSIS COMBINED WITH MACHINE LEARNING IDENTIFIES KEY IMMUNE RESPONSE PROFILES AND POTENTIAL CORRELATES OF PROTECTION FOR THE M72/AS01E TUBERCULOSIS VACCINE

Tuberculosis claims around 1.5 million lives annually. The M72/AS01E vaccine candidate is an innovative effort demonstrating a 50% reduction in the in...

Using large language models to understand the public discourse towards vaccination in Brazil between January 2013 and December 2019

Vaccination against infectious diseases prevents diseases, saves lives, and reduces healthcare costs. However, trust, accessibility, and public percep...

Investigating the causal network of dementia by employing a causal discovery approach combined with natural language processing models

Comprehensively studying modifiable risk factors altogether to explore how they contribute to dementia mechanism is imperative for effective intervent...

Sentiment analysis of employees and COVID-19 vaccine hesitancy at workplace

Vaccination is a potent means to combat the spread of infectious disease epidemics or pandemics, such as the COVID-19 pandemic. However, getting suffi...

Expanding cholera serosurveillance to vaccinated populations

Mass oral cholera vaccination campaigns targeted at subnational areas with high incidence are central to global cholera elimination efforts. Serologic...