Browse Papers
Search the literature by keyword, topic, or author. Filter to articles with full text available.
3689 results
Shared Extracellular Matrix Remodeling and Proteomic Signature in Dupuytren's Disease and Relapsed Clubfoot Tissue
Although Dupuytren's disease (DD) and relapsed Clubfoot (RC) are clinically distinct conditions, both exhibit fibrotic tissue remodeling and contracture. This exploratory study investigated whether DD and RC share molecular features associated with fibroproliferative contracture. Pathological …
Read PDFIdentification of Serum BST1 as a Biomarker to Predict Coronary Artery Lesions in Children with Kawasaki Disease Based on 4D-DIA Quantitative Proteomics
<h4>Background</h4>Kawasaki disease (KD) is a leading cause of acquired heart disease in children, with coronary artery lesions (CAL) as its most severe complication. This observational study aimed to investigate the expression of bone marrow stromal …
Read PDFKey Methodologies in Characterizing the Multi-Scale Structures of Gluten Proteins in Dough: A Comparative Review
Gluten proteins are key components in wheat flour that determine the formation of dough and the quality of flour-based products. Upon hydration and mixing, gluten proteins undergo complex structural transformations to form a gluten network, …
Read PDFA data-driven pan-cancer proteogenomic analysis reveals the characteristics of human cancer protein expression
Genomics and epigenomics outline potential cellular changes, while proteomics reflects actual molecular events. To systematically bridge the molecular hierarchies and validate their functional interplay, we established the most comprehensive pan-cancer paired multi-omics resource to date, …
Read PDFIn-depth analysis of data characteristics and comparative evaluation of dda and dia accuracy in label-free quantitative proteomics of biological samples
Data-Dependent Acquisition (DDA) and Data-Independent Acquisition (DIA) are widely used in MS-based proteomics. However, a comprehensive evaluation of their data characteristics-including protein and peptide identification, differential expression analysis, and the performance in revealing biological insights-remains …
Read PDFDisrupted transporter protein expression and cell-specific localization reveal neurovascular unit remodeling in human glioblastoma
<h4>Background</h4>Current understanding of transporter protein expression and localization within the neurovascular unit (NVU) of the human normal brain cortex and glioblastoma (GBM) remains largely qualitative and lacks cellular resolution. This study aimed to provide a …
Read PDFMachine learning identifies proteomic risk factors across 23 diseases
Achieving minimally invasive and rapid detection is a crucial goal in modern medicine. The comprehensive characterization of the blood proteome holds great promise in advancing our understanding of disease etiology, facilitating early diagnosis, risk stratification, …
Read PDFPowerNovo2: A generative flow-based approach to non-autoregressive de novo peptide sequencing
Proteomics utilizes tandem mass spectrometry (MS/MS) to determine peptide sequences, traditionally through database searches constrained by prior knowledge. De novo sequencing offers a database-free alternative but struggles with accurately modeling complex MS/MS spectra. Most current …
Read PDFPredicting and Treating Pulmonary Fibrosis with Proteomic Biomarker Investigations
Idiopathic pulmonary fibrosis (IPF) is a chronic, rare, and fatal disease that is the consequence of aberrant remodeling and defective repair mechanisms within the lung, culminating in the loss of alveolar integrity. Although significant progress …
Read PDFPotential new biomarkers in pig saliva for differentiating between the effects of different conditions of mixing and density at pre-slaughter: A preliminary proteomicstudy
The intensification of pig (<i>Sus scrofa domesticus</i>) production systems raises concerns regarding animal welfare, particularly during pre-slaughter conditions, a phase associated with significant stress. Saliva is increasingly recognised as a non-invasive matrix for detecting stress-related …
Read PDFVerification of the predictive value of EV-associated biomarkers MMP9 and CEACAM1 in rehabilitation of ischemic stroke
<b>Aim:</b> Extracellular vesicles (EVs) contribute to stroke rehabilitation by mediating intercellular signaling during inflammation and tissue repair. Here we report EV-associated surface proteins as potential biomarkers for predicting recovery of activities of daily living (ADL) …
Read PDFComprehensive profiling of Aβ40 and Aβ42 fibril-interacting proteins reveals PRKCG as a drug-targetable regulator of amyloidogenesis in Alzheimer's disease
<h4>Introduction</h4>Proteins interacting with amyloid beta (Aβ) fibrils could be key to plaque formation in Alzheimer's disease (AD) and represent potential biomarkers and therapeutic targets. Previous proteomic studies using microdissected plaques might have captured non-specific components …
Read PDFDistinct Proteomic and Glycosylation Signatures Differentiate A549 Tumor and BEAS-2B Nontumor Cell Line-Derived Small Extracellular Vesicles
Extracellular vesicles (EVs) are central to intercellular communication and have gained attention as rich sources of molecular information in cancer research, but their molecular composition remains incompletely characterized. Protein glycosylation is a frequent post-translational modification; …
Read PDFAge-based approach to characterize the dynamics of cellular processes
Cells continuously produce and degrade molecules, essential for maintaining homeostasis. The study of these dynamics has gained momentum since the development of pulse-chase methods, utilizing fluorescent or isotopic labeling to assess properties such as turnover …
Read PDFProximity proteomics reveals OTUD6B regulation of stress granule dynamics through coalescence with VCP/p97
Stress granules (SGs) are membrane-less organelles formed through liquid-liquid phase separation of proteins and RNAs, serving as temporary repositories for biomacromolecules to protect cells under stress conditions. Impaired SG disassembly is closely implicated in neurodegenerative …
Read PDFSpatial omics and AI for clinically actionable cancer biomarkers
Integrating spatial omics with artificial intelligence is likely to advance biomarker research and diagnostics, with the potential to pair mechanistic insight into spatial target biology. By developing scalable, reproducible quantification in routine pathology, it can …
Read PDF