CONCLUSIONS: Our findings provide novel insights into macrophage-specific gene programs during atherosclerosis progression and identify a set of promising biomarkers that can serve as a resource for future studies. These…
Drug target proteome profiling identifies HES1-driven mitotic catastrophe in ovarian serous carcinoma
Ovarian high-grade serous cancer (HGSC) is the most aggressive ovarian cancer subtype with limited treatment options. We identify the PDPK1 inhibitor BX-912 as a promising candidate, showing strong single-agent activity…
Nextpie: a web-based reporting tool and database for reproducible nextflow pipelines
MOTIVATION: High-throughput genomic data analysis consists of the inexorably intertwined inputs and outputs of a vast array of bioinformatic analysis tools. To guarantee streamlined and reproducible analyses, the often complex…
Reinstating Niche Failure in Diabetic Cranial Defects via Chronotaxic Signal-Amplifying Fluidic Biomimetic Hydrogel
Cranial stem cell niches (SCNs) are intrinsically scarce and hypoactive, and, exacerbated by chronic inflammation in diabetes, lead to niche failure and regenerative deficit after injury. Herein, an in situ…
Characterization of Visceral Adipose Tissue Proteome Reveals Metabolic Changes and Inflammatory Signatures in Severe Obesity
CONCLUSIONS: These findings demonstrate significant molecular alterations in the VAT proteome associated with severe obesity, providing insights into the underlying mechanisms of metabolic disease. The differentially expressed proteins may serve…
Prenatal exposure to perfluoroalkyl substances predicts multimodal brain structural and functional outcomes in children aged 5 years: a birth cohort study
BACKGROUND: Perfluoroalkyl and polyfluoroalkyl substances (PFAS) are ubiquitous persistent organic pollutants associated with adverse health outcomes in humans. Although they are associated with autism spectrum disorder and behavioural outcomes, whether…
LimROTS: A Hybrid Method Integrating Empirical Bayes and Reproducibility-Optimized Statistics for Robust Differential Expression Analysis
MOTIVATION: Differential expression analysis plays a vital role in omics research enabling precise identification of features that associate with different phenotypes. This process is critical for uncovering biological differences between…
MicroRNA gene dynamics in immune cell subpopulations during aging and atherosclerosis disease development at single-cell resolution
CONCLUSIONS: We demonstrate that miRNA gene transcriptional activity is widely impacted in immune cells by aging and during disease development and further identify the corresponding translatome signature of inflamed adipose…
Functional characterization and directed evolution of Cicer arietinum glutathione transferases for enhanced hydroperoxidase activity and ligandin function
Tau class glutathione transferases (GSTUs) play essential roles in plant defense by facilitating the nucleophilic attack of glutathione (GSH) to a wide range of electrophilic xenobiotics. In addition to their…
Early life gut microbial and metabolic shifts reflected in stool consistency- a gut transit time proxy
Transit time, fluid intake, diet, and overall gut health all influence stool consistency. However, the relationships between the gut microbiota, metabolome (microbial metabolites), and stool consistency in infants and young…