Allergy & Immunology

Decoding the Microbiome-Disease Axis with Interpretable Graph Neural Networks.

AIMS: The human gut microbiome is a complex ecosystem whose disruption is implicated in a wide spectrum of diseases, yet translating microbiome research into actionable therapeutics is hindered by a critical trade-off: existing models either prioritize predictive accuracy at the expense of interpretability or sacrifice performance for mechanistic insight, limiting their ability to pinpoint specifi...

Harnessing lipid-driven immunometabolic pathways in omental metastases to enhance immunotherapy in patients with ovarian cancer.

Immunotherapy with immune checkpoint blockade (ICB) in epithelial ovarian carcinoma (EOC) shows limited clinical benefit only for a small subset of patients. Overall response rates are low, so that overcoming immunotherapy resistance and improved stratification are key. In this study, we investigated the immunometabolic landscape of EOC with a focus on omental metastases, identifying lipid-laden m...

Neoadjuvant Systemic Therapy in Kidney and Bladder Cancer: Current Evidence and Emerging Paradigms.

Neoadjuvant systemic therapy has emerged as a strategy to improve outcomes in high-risk localized genitourinary malignancies. In bladder cancer, neoad...

Integrating machine learning of bulk and single cell RNA data to characterize immune mechanism of m6A related mitophagy genes in malignant gastric cancer.

BACKGROUND AND OBJECTIVE: Gastric cancer is a heterogeneous and complicated epithelial cancers. Chronic H. pylori and EBV infection, as well as intest...

TCR sequencing in cancer immunology and immunotherapy: what, when, where, why, and how.

T-cell receptors (TCRs) are generated through somatic recombination of variable (V), diversity (D), and joining (J) gene segments, resulting in an ext...

A high density of T-cell lymphocytes and Tregs subset correlate to a worse survival in major salivary gland carcinomas.

Salivary gland carcinomas (SGC) are rare and heterogeneous tumors with limited therapeutic options in advanced stages. Recent evidence suggests a pote...

GSDME-mediated pyroptosis modulates the immunosuppressive microenvironment in lung adenocarcinoma.

Despite the increasing recognition of pyroptosis, particularly that involving GSDME, its precise impact on tumor prognosis and the immune microenviron...

Multi-omics profiling reveals cholic acid-mediated immunosuppression driven by peritumoral ductular reactions in hepatocellular carcinoma.

Hepatocellular carcinoma remains a leading cause of cancer mortality worldwide, with peritumoral microenvironment interactions playing a critical role...

Integrating Reproductive and Clinical Variables to Predict Postpartum Disability Outcomes in Multiple Sclerosis Using Machine Learning.

BACKGROUND: Pregnancy represents a unique immunological state in women with multiple sclerosis (MS), and postpartum disease reactivation is a major co...

Distinct Tumor-Immune Ecologies in Patients with Lung Cancer Predict Progression and Define a Clinical Biomarker of Therapy Response.

UNLABELLED: Multiplexed imaging of tissues is an approach that holds promise for improving early detection, diagnosis, and treatment of cancer. In thi...

Developing a Metabolic-Associated Prognostic Index for Risk Stratification and Therapeutic Guidance in Stage I Lung Adenocarcinoma via Multiomics Analysis.

PURPOSE: Early-stage lung adenocarcinoma (LUAD) exhibits substantial clinical heterogeneity that is not fully explained by TNM staging, highlighting t...

Machine Learning Reveals the Association Between Gene Expression and Immune Infiltration in Colorectal Cancer: A Comprehensive Study From Single-Cell to Survival Analysis.

Colorectal cancer (CRC) is one of the most common causes of cancer mortality globally. Analysis of immune cell infiltration patterns in the tumour mic...

Adverse reactions of PD-1/PD-L1 inhibitors in cancer: FAERS database analysis and protocols to mitigate immune-related events in elderly patients and when using pembrolizumab and atezolizumab.

OBJECTIVE: This study aimed to characterize adverse drug reactions (ADRs) associated with programmed death-1/programmed death-ligand 1 (PD-1/PD-L1) in...

Techniques to Detect and Quantify the Bacterial Metalloprotease AprX in Bovine Milk: A Review.

The heat-stable metalloprotease AprX, secreted by psychrotrophic Pseudomonas spp., is a major cause of quality deterioration in dairy products, partic...

Cytokine expression mediated immunogenic response of therapeutic IgG aggregates obtained by forced degradative stress factors and the role of a deep neural network in its prediction.

PURPOSE: Biotherapeutic products can aggregate during different stages of the product life cycle. Activation of immune cells due to aggregates of mAb ...

Annotation-free prediction of immunotherapy response in melanoma using single-cell transcriptomic data.

Immune checkpoint inhibitors (ICIs) have transformed the advanced melanoma treatment landscape; however, a subset of patients achieve durable response...

Distinguishing post-COVID from long-COVID in adults: Development and validation of a biomarker signature using targeted proteomics and machine learning in a cross-sectional observational study.

BACKGROUND: COVID-19 can have diverse clinical manifestations, ranging from asymptomatic infection to critical illness with multiorgan involvement. Wh...

Integrating Clinical Modeling and Machine Learning for Risk Assessment of Paracetamol and Other Nonsteroidal Anti-Inflammatory Drug Hypersensitivity in Children.

BACKGROUND: Nonsteroidal anti-inflammatory drug (NSAID) hypersensitivity is a common cause of drug-related reactions in children. Pre-test risk strati...

Deep Learning-Enhanced Biomarker Interpretation on Cytology Cell Blocks - Foundations and Emerging Opportunities in Spatial Pathobiology.

Cytology cell block specimens are essential diagnostic materials in patients with advanced-stage malignancy and often represent the only available sub...

Synergizing Artificial Intelligence with In Vivo CAR-T Cell Generation: A New Paradigm for Democratized Immunotherapy.

In vivo CAR-T cell generation represents a paradigm shift in immunotherapy by transitioning the production of chimeric antigen receptor (CAR) T cells ...