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A Clinical Metaproteomics Workflow Implemented within Galaxy Bioinformatics Platform to Analyze Host-Microbiome Interactions Underlying Human Disease.
J Vis Exp
January 2025
Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota;
Clinical metaproteomics reveals host-microbiome interactions underlying diseases. However, challenges to this approach exist. In particular, the characterization of microbial proteins present in low abundance relative to host proteins is difficult.
View Article and Find Full Text PDFDeciphering the senescence-based tumoral heterogeneity and characteristics in pancreatic cancer: Results from parallel bulk and single-cell transcriptome data.
IUBMB Life
January 2025
Department of Hepatopancreatobiliary Surgery, Ningbo Medical Center Lihuili Hospital (The Affiliated Lihuili Hospital, Ningbo University), Ningbo, Zhejiang, People's Republic of China.
The prevalent intra- and intertumoral heterogeneity results in undesirable prognosis and therapy failure of pancreatic cancer, potentially resulting from cellular senescence. Herein, integrated analysis of bulk and single-cell RNA-seq profiling was conducted to characterize senescence-based heterogeneity in pancreatic cancer. Publicly available bulk and single-cell RNA sequencing from pancreatic cancer patients were gathered from TCGA-PAAD, PACA-AU, PACA-CA, and GSE154778 datasets.
View Article and Find Full Text PDFPhase I trial of hydroxychloroquine to enhance palbociclib and letrozole efficacy in ER+/HER2- breast cancer.
NPJ Breast Cancer
January 2025
Department of Breast Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA.
Endocrine therapy with CDK4/6 inhibitors is standard for estrogen receptor-positive, HER2-negative metastatic breast cancer (ER+/HER2- MBC), yet clinical resistance develops. Previously, we demonstrated that low doses of palbociclib activate autophagy, reversing initial G1 cell cycle arrest, while high concentrations induce off-target senescence. The autophagy inhibitor hydroxychloroquine (HCQ) induced on-target senescence at lower palbociclib doses.
View Article and Find Full Text PDFAdvanced lipidomics using UHPLC-ESI-QTOF-MS/MS reveals novel lipids in hibernating syrian hamsters.
J Chromatogr A
January 2025
Centro de Metabolómica y Bioanálisis (CEMBIO), Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización Montepríncipe, Boadilla del Monte 28660, España. Electronic address:
Mammalian hibernation offers a unique model for exploring neuroprotective mechanisms relevant to neurodegenerative diseases. In this study, we employed untargeted lipidomics with iterative tandem mass spectrometry (MS/MS) to profile the brain lipidome of Syrian hamsters across different hibernation stages: late torpor, arousal, and euthermia (control). Previously, a lipid species identified as methyl-PA(16:0/0:0) showed a significant increase during torpor, but its precise structure was unresolved due to technological constraints.
View Article and Find Full Text PDFColorimetric and fluorescent probe assisted by smartphone app for monitoring fish freshness.
Food Chem
January 2025
College of Food Science and Engineering, College of Chemistry and Materials Engineering, Institute of Ocean, National & Local Joint Engineering Research Center of Storage, Processing and Safety Control Technology for Fresh Agricultural and Aquatic Products, Bohai University, Jinzhou 121013, PR China. Electronic address:
In this study, a novel "OFF-ON" fluorescent probe MPZ ((E)-5-((10-ethyl-2-methoxy-10H-phenothiazin-3-yl)methylene)thiazolidine-2,4-dione) based on phenothiazine is synthesized, which can rapidly (7 s) detect biogenic amines (BAs) through deprotonation, utilizing both colorimetric and fluorescent dual channels. An app for visual portable detection of fish freshness, named "Visual Evaluation", is independently developed. This app integrates several functions, including image capture, editable scanning of red, green, and blue (RGB) values, data analysis fitting, data storage, and verification.
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