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Recent advances in instrumentation and data processing have transformed data-independent acquisition (DIA) proteomics into a reliable technology for quantitative profiling of post-translational modifications. However, analysis of DIA phosphoproteomics data is challenging due to the large …
Read PDF<h4>Background</h4>Ubiquitin-like protein ISG15 (interferon-stimulated gene 15) is implicated in the regulation of central carbon metabolism, but conflicting findings across experimental systems limit mechanistic insight. Here, we apply a multi-omics approach in cells ectopically expressing the …
Read PDFSpatial proteomics has emerged as a powerful approach to systematically map the subcellular localization of thousands of proteins in parallel, providing insights into organelle composition, protein trafficking, and context-dependent relocalization events. Building on advances in …
Read PDFProtein phosphorylation is a central post-translational modification regulating cellular signaling, frequently dysregulated in cancer. Mass spectrometry (MS)-based phosphoproteomics has emerged as a powerful approach to systematically profile phosphorylation events, thereby revealing aberrant kinase activity and …
Read PDFThis study evaluated the cerebrospinal fluid (CSF) proteomes from 31 patients diagnosed with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS). We quantified 902 proteins, each expressed in at least eleven samples, and systematically categorized clinical factors relevant …
Read PDF<h4>Motivation</h4>Network theory has proven invaluable in unraveling complex protein interactions. Previous studies have employed statistical methods rooted in network theory, including the Gaussian graphical model, to infer networks among proteins, identifying hub proteins based on …
Read PDFThis study investigates the serum proteome dynamics of male Hilsa (Tenualosa ilisha), a species of immense ecological and economic value, to support its conservation, aquaculture, and long-term sustainability. Using advanced LC-MS/MS-based proteomic techniques, we identified …
Read PDFSickle cell trait (SCT), the heterozygous state for the hemoglobin S (HbS) mutation, affects roughly 1 in 13 African American individuals and is common among blood donors recruited for antigen-matched transfusions in sickle cell disease …
Read PDFTakotsubo syndrome (TS) is characterized by transient regional wall motion abnormalities (RWMA) of the heart following stress. Extracellular vesicles (EVs) play a significant role in cellular communication and disease pathophysiology, but remain unexplored in TS. …
Read PDFChronic social isolation (CSIS) is a form of psychosocial stressor strongly associated with the development of depression. Preclinical studies demonstrated that CSIS induces behavioral phenotypes resembling human depression, including anhedonia, behavioral despair and anxiety. This …
Read PDF<h4>Background</h4>While cardiopulmonary transition in neonates is well described, molecular changes which accompany it are not. The Extracellular Vesicles in Early preterm neonates and Thrombin generation (EVENT) study sought to explore molecular transition in preterm birth. …
Read PDFCannabidiol (CBD) is increasingly being used in veterinary medicine; however, its systemic molecular effects in dogs remain poorly characterized. This study employed label-free quantitative proteomics to compare the serum proteomic responses of healthy dogs (<i>n</i> …
Read PDF<h4>Background</h4>Neonatal hypoxic-ischemic encephalopathy (HIE) triggers systemic oxidative stress and redox imbalance, contributing to multi-organ injury. Urine is a noninvasive matrix for longitudinal profiling of molecular responses, yet time-resolved proteomic studies in HIE are limited.<h4>Methods</h4>We performed …
Read PDFAccurate determination of protein sequences is central to biology. Protein-based therapeutics, such as antibodies and nanobodies, are not encoded in reference genomes, challenging their accurate characterization via standard proteomics. Current methods rely on indirect inference, …
Read PDFCisplatin-based chemotherapy is the primary treatment for advanced bladder cancer; however, numerous patients experience treatment failure because of chemoresistance. Therefore, it is crucial to identify drivers of chemoresistance and determine strategies to counteract them to …
Read PDFBACKGROUND: Aging is intrinsically linked to diabetes pathogenesis, yet evidence gaps persist regarding organ-specific aging and risks of long-term diabetes complications. This study aims to estimate the association between plasma proteomics-based organ-specific aging and risks …
Read PDFAcute hypoxia triggers multiple physiological and immune responses, yet the immediate systemic effects on circulating complement proteins remain insufficiently characterized. The complement cascade plays a central role in inflammation, host defense, and ischemia-related tissue injury, …
Read PDFOBJECTIVE: Sepsis remains a leading cause of mortality worldwide, with cardiac dysfunction contributing substantially to sepsis-related deaths. Due to the unique biology of myocardial tissue, the mechanisms underlying sepsis-induced cardiac injury are incompletely understood. This …
Read PDFAchieving high-resolution spatial tissue proteomes requires careful balancing and integration of optimized sample processing, chromatography, and MS acquisition. Here, we present an advanced cellenONE protocol for loss-reduced tissue processing and compare all Evosep ONE Whisper …
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