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To search for genetic sources of allele-specific mRNA translation, we leveraged heterozygous polymorphisms and variants present in the exome of HCT116 colorectal adenocarcinoma-derived cells, computing allelic fractions from both total and polysome-associated RNA from RNA-Seq …
Read PDFPituitary neuroendocrine tumors are frequently invasive, with cavernous sinus invasion leading to poor treatment outcomes and high recurrence. Regional differences within these tumors remain poorly understood, hindering targeted therapy development. Here, we present the first …
Read PDFBACKGROUND: Blood eosinophil count is an accepted biomarker for type 2 inflammation in COPD. However, the majority of COPD patients are characterized by non-type 2 inflammation. We aimed to test readily obtainable immune cell ratios …
Read PDFOxidative stress triggers redox-sensitive post-translational modifications, notably disulfide bond formation involving cysteine residues. However, these bonds are often overlooked in proteomics due to the routine use of reducing agents. Here, we employed (LC-MS based metabolomics …
Read PDFA significant economic impact to the agriculture and declining drug efficacy due to anthelmintic resistance lead to the search for novel intervention approaches against the zoonotic liver fluke <i>Fasciola hepatica</i>. A cost-effective strategy is to …
Read PDFProducing functional proteins involves multiple steps during mRNA translation on the ribosomes. However, co-translational regulatory mechanisms remain poorly characterized in intact mammalian systems. As a proof-of-concept, we developed a multi-omics approach to investigate endothelial-specific, co-translational …
Read PDFSingle-cell omics tools provide unique insights into heterogeneous cell populations and their responses to stimuli. For example, single-cell RNA sequencing has identified several transcriptionally distinct populations of microglia, which are resident immune cells of the …
Read PDFPrimary open-angle glaucoma (POAG) is a leading cause of irreversible blindness driven by elevated intraocular pressure from compromised aqueous outflow. While genome-wide association studies have identified numerous risk loci, specific candidate proteins and their cellular …
Read PDFImmune thrombocytopenia (ITP) is a hematological disorder commonly found in individuals of any gender, race, or age. Patients with ITP will present with thrombocytopenia either in a primary form or because of an infection or …
Read PDF<h4>Background</h4>Postoperative delirium (POD) is a frequent and serious complication in older surgical patients, characterized by acute cognitive dysfunction and fluctuating levels of consciousness. POD is associated with prolonged hospitalization, long-term cognitive decline, reduced quality of …
Read PDFSpatial proteomics enables the mapping of protein distribution within tissues, which is crucial for understanding cellular functions in their native context. While spatial transcriptomics has seen rapid advancement, spatial proteomics faces challenges due to protein …
Read PDFTurquoise killifish (Nothobranchius furzeri) are naturally short-lived vertebrates that recapitulate key aspects of human aging. However, the molecular and cellular causes of systemic aging in killifish are poorly understood. Here we ask whether killifish undergo …
Read PDFThe deconvolution of bulk omics data provides enhanced resolution of cell populations within samples and has been widely adopted, particularly in cancer biology. In this study, we applied deconvolution approaches to both transcriptomic and proteomic …
Read PDF<h4>Background</h4>Spatial proteogenomics marks a paradigm shift in oncology by integrating molecular analysis with spatial information from both spatial proteomics and other data modalities (e.g., spatial transcriptomics), thereby unveiling tumor heterogeneity and dynamic changes in the …
Read PDFHuman skeletal muscle is composed of highly heterogeneous single muscle fibers (multinucleated single cells) that are commonly classified as fast or slow fiber types, yet proteoform-resolved characterization of individual human muscle fibers remains lacking. Herein, …
Read PDFClear cell renal cell carcinoma (ccRCC) is characterized by a complex molecular landscape driven by recurrent genetic alterations. While genomic and transcriptomic profiling have identified core drivers, they often fail to provide robust biomarkers due …
Read PDFFusarium Head Blight (FHB) is a devastating fungal disease of small grain cereals like wheat and barley, causing substantial yield and quality losses each year worldwide. FHB is caused by Fusarium species that produce mycotoxins …
Read PDF<h4>Abstract</h4>Hemoglobinopathies are the most common monogenic genetic disorders, primarily managed through blood transfusions or bone marrow transplantation. Clinical severity other than mutational effect is not well investigated and still unknown. This study aimed to identify …
Read PDFTo elucidate the mechanism underlying changes in the water-holding capacity of yak meat during postmortem aging, yak longissimus dorsi muscle was used as the experimental material. Changes in pressure loss, drip loss, cooking loss, and …
Read PDF<h4>Background</h4>Kidney stone disease (KSD) is a prevalent disorder characterized by considerable morbidity and growing healthcare burden. However, the pathogenesis of kidney stone formation remains incompletely understood. This study aimed to explore the gene expression profiles …
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