Genetics

Constitutive activation of a hybrid two-component regulator reveals cross-regulation of polysaccharide utilization genes in Bacteroides.

Human gut microbes, such as Bacteroides, rely on specialized gene clusters known as polysaccharide utilization loci (PULs) to metabolize diverse dietary and host-derived glycans. A major class of transcription regulators of these PULs is the hybrid two-component system (HTCS) containing a histidine sensor kinase and a response regulator (RR) within a single transmembrane polypeptide chain. Charact...

Simulated wildfire smoke particulate matter elicits STING-dependent astrocyte-mediated inflammatory signaling and neurotoxicity.

Changing global wildfire landscapes necessitate exploration of the effects of exposure to wildfire smoke on health and disease. Exposure to this toxicant is not only associated with acute cardiopulmonary dysfunction, but is increasingly recognized as a serious risk factor for neurodegenerative diseases such as Alzheimer's disease (AD) and Parkinson's disease (PD). However, the cellular and molecul...

Multi-Omics and Machine Learning Integration Identifies Key Endothelial Modules in Carotid Artery Stenosis.

BACKGROUND: Carotid artery stenosis (CAS) is a major cause of ischemic stroke, yet reliable molecular biomarkers for early identification remain limit...

Integrative transcriptomic and single-cell analysis reveals metabolic reprogramming and hexosamine biosynthesis-mediated tumor microenvironment remodeling in prostate cancer.

BACKGROUND: Prostate cancer is one of the most common malignancies in men and exhibits substantial clinical heterogeneity. A considerable proportion o...

User-Guided Visual Analytics of Genome-wide DNA Methylation Data Based on Self-Organizing Maps.

DNA methylation is a key epigenetic modification with diagnostic and prognostic relevance across a wide range of diseases, particularly cancer. Modern...

AI-Supported, Integrative Prediction of Postoperative Delirium: Protocol for the CONFUSED Study.

BACKGROUND: Postoperative delirium (POD) is a frequent and serious complication in older surgical patients, characterized by acute cognitive dysfuncti...

Toward simultaneous pseudo-space reconstruction and cell-type deconvolution of single-cell spatial transcriptome using SpaDicer.

Single-cell RNA sequencing (scRNA-seq) and spatial transcriptomics (ST) offer complementary insights into tissue heterogeneity. Each modality is chara...

Explainable machine learning-guided integrated multiomics analysis reveals macrophage-driven immune suppression in breast cancer.

Despite thorough characterizations of cellular compositions within the breast tumor microenvironment (TME), their implications for disease progression...

Research progress and development strategies of antibody-oligonucleotide conjugates.

Antibody-oligonucleotide conjugates (AOCs) effectively integrate the delivery capability of antibodies with the specific gene regulatory function of o...

Integrating single-cell and bulk transcriptomic analyses to explore key lactylation-related genes in benign prostatic hyperplasia.

Benign prostatic hyperplasia (BPH) is a prevalent age-related disorder characterized by chronic inflammation, metabolic dysregulation, and abnormal ce...

Integration of single-cell RNA-sequencing and machine learning identifies GRN and FCER1G as potential peroxisomal targets in influenza pathogenesis.

BACKGROUND: Influenza, an acute respiratory infection caused by influenza viruses, imposes a significant burden on the healthcare system. Peroxisomes ...

Identifying potential ligand-receptor interactions by integrating LSTM network and the attention mechanism for cell-cell communication prediction.

BACKGROUND: Cell-cell communication (CCC) mediated by ligand-receptor (L-R) interactions is fundamental to deciphering tissue development and disease ...

DNA demethylation of ANXA4 is associated with atrial fibrillation risk through myeloid immune mechanisms: evidence from Mendelian randomization and multi-omics analyses.

BACKGROUND: Atrial fibrillation (AF) is a common arrhythmia affecting millions of patients globally. While epigenetic modifications play a significant...

Hallmarks of epithelial-mesenchymal plasticity in cancer.

Cancer stem cells (CSCs) drive tumour initiation, progression, metastasis, and therapy resistance through their remarkable plasticity, enabling dynami...

Standardizing antiviral response metrics for mono- and combination therapies in acute, chronic and latent viral infections.

The COVID-19 pandemic showed that heterogeneous antiviral assay designs, endpoints and reporting practices can obscure which candidate drugs and combi...

Advances in Nano-Enabled Biosensing Technology for Gastric Cancer Diagnosis: Mechanistic Insights and Translational Perspectives.

Gastric cancer (GC) remains a critical burden on healthcare, affecting millions of people annually. Helicobacter pylori infection is a critical contri...

Recent Advances in Omics and Genetic Tools in Schistosome Research and Control.

Schistosomiasis is a neglected tropical disease posing a persistent threat to global health, particularly in endemic areas. Mass drug administration w...

An exploratory application of modern statistical methodology and machine learning techniques in assessment of crystallinity monitoring and control strategy development for high-risk drug manufacturing.

Pharmaceutical polymorphism and crystallinity changes may have significant impact on drug's quality, efficacy, and safety. The risk mitigation strateg...

Nuclear DNA-Gated Electrochemiluminescence Microscopy with Deep Learning for Single-Cell Apoptosis Profiling.

Accurately assessing how individual cells respond to anticancer agents remains challenging because most assays provide bulk or binary readouts and can...

KIF23 in disease pathogenesis and its therapeutic and diagnostic potential.

BACKGROUND: Kinesin family member 23 (KIF23) is a microtubule-dependent motor protein essential for cytokinesis, organelle transport, and signaling pa...