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Alzheimer's disease (AD) is the leading cause of dementia and represents a progressive, irreversible neurodegenerative disorder. Given the complexity and heterogeneity of AD, which involves numerous interrelated molecular pathways, large-scale proteomics datasets are essential for …
Read PDF<h4>Background</h4>Due to its proximity to cells of the central nervous system, cerebrospinal fluid (CSF) is an important source of novel biomarkers for neurological diseases. Membrane-bound extracellular vesicles (EVs) are enriched for proteins of intracellular and …
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Read PDF<h4>Abstract</h4>Central nervous system (CNS)-hemophagocytic lymphohistiocytosis (HLH) can mimic other neuroinflammatory disorders (ONID), often leading to misdiagnosis. Current diagnostic studies do not reliably distinguish CNS-HLH from ONID. We hypothesized that novel cerebrospinal fluid (CSF) biomarkers identified …
Read PDFNeoadjuvant chemotherapy (NACT) is the standard treatment for muscle-invasive bladder carcinoma (MIBC), but its efficacy varies significantly among patients. The aim of this study is the identification of biomarkers and biological processes related to the …
Read PDFSUMOylation is an understudied post-translational modification (PTM) linked to diverse physiological and pathological processes. Advances in enrichment strategies, combined with mass spectrometry (MS), have enabled large-scale mapping of SUMOylation sites. Here, we reanalyzed publicly available …
Read PDFAccurate identification of prognostic cancer subtypes remains challenging using routine diagnostics alone. Here, we present a protocol to obtain isocitrate dehydrogenase (IDH)-mutant astrocytoma subtype predictions using the generic utility for immune/mesenchymal-enriched (IME) diagnostic estimation (GUIDE). …
Read PDFAXL, a receptor tyrosine kinase implicated in tumor progression, undergoes post-translational modifications that regulate its activity and stability. In this study, we demonstrated that AXL is extensively N-glycosylated in breast and ovarian cancer cells, existing …
Read PDFMycobacterium tuberculosis is the causative pathogen of human tuberculosis and a leading cause of death worldwide attributed to a single infectious agent. While small non-coding RNAs (sRNAs) have emerged as key regulators of bacterial pathogenicity, …
Read PDFWe present a pilot, single-subject longitudinal analysis of plasma antibodies and proteome dynamics across 310 days spanning COVID-19 vaccination and subsequent SARS-CoV-2 infection. Serial plasma samples were analyzed by DIA-LC-MS/MS, identifying 1502 proteins. Comparative analyses …
Read PDFNogo (RTN4) proteins and their receptors have emerged as candidate mediators of metabolic regulation and vascular pathology relevant to type 2 diabetes (T2D). The primary objective of this PRISMA-guided systematic review was to evaluate the …
Read PDF<h4>Background</h4>Breast cancer is a malignant tumor characterized by metastasis. It first spreads through the lymphatic system to lymph nodes of various levels and can subsequently metastasize to distant organs via the bloodstream. Therefore, identifying protein …
Read PDFA crucial step in processing mass spectrometry-based proteomics data is identifying and quantifying the proteins in the sample. While the existing search engines can easily match tandem mass spectra to peptide sequences, selecting the most …
Read PDF<b>Background/Objectives:</b> Doxorubicin (DOX) is an effective chemotherapeutic agent whose clinical utility is limited by cardiotoxicity. To investigate underlying mechanisms, we employed a multi-omics approach integrating transcriptomics and proteomics, leveraging established mouse models of chronic DOX-induced …
Read PDFApolipoprotein E (APOE) is essential for lipid homeostasis and has been extensively studied in Alzheimer's disease (AD). Individuals carrying an <i>APOE4</i> allele have an increased risk of AD and exhibit deficits in energy metabolism, including …
Read PDFChronic pancreatitis (CP) is characterized by chronic pancreatic inflammation and progressive fibrosis. This study investigated the role of ubiquitin-specific peptidase 1 (USP1), a protein-stabilizing deubiquitinase, in CP. C57BL/6J mice were given 8-week repetitive intraperitoneal cerulein …
Read PDFAbdominal aortic aneurysm (AAA) remains difficult to detect early due to its silent progression and lack of reliable molecular biomarkers. Computational prioritization of disease-associated proteins from protein-protein interaction (PPI) networks offers a scalable alternative to …
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