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Selective NdH2 exposure enhances hydrogen storage capability of Mg-Mg2Ni nanocomposites over 3700 cycles
Proximity of the Histone-Acetylation Site to the Termini Shapes Phase Behavior with DNA
Optimization of cordycepin fermentation by Cordyceps militaris via response surface methodology
Accurate and fast event-based shape measurement of mixed reflectance scenes
Quantum Phase Transition of a Molecular Radical Pair
Prodeg type Shannon graph entropies with closed forms bounds and QSPR modeling
Giant orbital-magnon conversion driven perpendicular magnetization switching
Direct Quantum Yield Measurement of a Ligand-to-Metal Charge Transfer Photocatalyst via Cyclic Voltammetry
Serum TIMP-1 concentrations are associated with cancer incidence and cancer-related mortality in a population-based cohort
Abstract The tumor microenvironment is regulated by matrix metalloproteinases (MMPs) and their tissue inhibitors (TIMPs); however, their utility as cancer biomarkers remains unclear. We investigated the associations of serum MMP-8, TIMP-1, and the MMP-8/TIMP-1 ratio with prevalent and incident cancer in 8448 individuals aged 25–74 years from the FINRISK97 cohort. Participants were followed for incident cancer (n = 1618) for 26 years through the Finnish Cancer Registry. Serum MMP-8 and TIMP-1 concentrations were measured at baseline using immunoassays. Serum TIMP-1 levels were significantly higher in individuals with prevalent and incident cancer, including colorectal and lung cancer, whereas lower MMP-8 levels were observed in colorectal and prostate cancer. Accordingly, the MMP-8/TIMP-1 ratio was reduced in individuals with incident cancer. In age-stratified models adjusted for sex, smoking, and BMI, elevated TIMP-1 levels were strongly associated with incident cancer in participants aged 55–64 years (HR, 95% CI 6.36, 2.50–16.16) and ≥ 65 years (6.23, 1.67–23.21), and with cancer mortality (29.7, 8.25–106 and 18.4, 3.64–93.6). MMP-8 and the MMP-8/TIMP-1 ratio showed weaker associations with incident cancer and cancer mortality only in the 45–54-year age group. These findings support TIMP-1 as a potential biomarker for cancer risk and mortality.
Multifaceted roles of PDS5B in RAD51-dependent homology-directed DNA repair and replication fork protection
Electronic Trap State Engineered Covalent Organic Frameworks for Programmable Selectivity of Photocatalytic Molecular Oxygen Activation
Effects of zinc and probiotic co-supplementation on inflammation, gastrointestinal symptoms, quality of life, and mood in irritable bowel syndrome patients
Saliva, urine, and anorectal swabs as viable alternatives to lesion swabs for molecular diagnosis of mpox
Enantioselective Iridium-Catalyzed Intramolecular Hydroarylation of (Hetero)Arene-Tethered Prochiral Diketones
Multicenter machine learning model for assessing the impact of malignancy on in-hospital mortality in heart failure patients: a clinical decision support system with interpretable artificial intelligence
Co-migration of hundreds of microbial species over metres drives selection and promotes non-motile hitchhikers
Covalent Inhibitors of Monoacylglycerol Lipase Induce Conformational Changes and Proteasomal Degradation
Type 1 LacNAc and LacdiNAc on N-glycans as potential molecular biomarkers of human melanoma cells
Abstract Melanoma is the most dangerous form of skin cancer, as it has a high potential to metastasize. Surgical intervention in the early stages of carcinogenesis is over 90% effective. However, the survival rate is much lower for patients with distant metastases, even with immunomodulatory and targeted therapies. Not all patients respond positively to modern therapies. Therefore, melanoma remains a cancer for which diagnostic and prognostic markers, as well as new therapeutic targets, are necessary. Tumor progression is associated with changes in glycosylation that occur in the early phase of carcinogenesis and evolve as the cancer develops and spreads. Using matrix-assisted laser desorption/ionization (MALDI)-mass spectrometry (MS) and hydrophilic interaction liquid chromatography (HILIC)-high performance liquid chromatography (HPLC), along with exoglycosidase array digestions, we analyzed the N -glycomes of melanocytes and melanoma cells at different stages of cancer development. This study is the first to comprehensively characterize the N -glycome of melanocytes. Unlike melanocytes, melanoma cells express significantly higher levels of type 1 LacNAc units ( P < 0.001) and triantennary complex-type glycans ( P < 0.05) than high-mannose-type glycans ( P < 0.05). All analyzed cell lines possess Lewis X/A epitopes, as well as Galβ1-4Galβ1-4GlcNAc- and Galβ1-3Galβ1-3GlcNAc- units. Conversely, the LacdiNAc motif is unique to melanoma.
omicsGMF: a multi-tool for dimensionality reduction, batch correction and imputation in bulk- and single-cell proteomics
Abstract The unprecedented speed and sensitivity of mass spectrometry (MS) unlocked large-scale applications of proteomics and even enabled proteome profiling of single cells. However, this fast-evolving field is hindered by a lack of scalable dimensionality reduction tools that can compensate for substantial batch effects and missingness across MS runs. Therefore, we present omicsGMF, a fast, scalable, and interpretable matrix factorization method, tailored for bulk and single-cell proteomics data. Unlike current workflows that sequentially apply imputation, batch correction, and principal component analysis, omicsGMF integrates these steps into a unified framework, dramatically enhancing data processing and dimensionality reduction. Additionally, omicsGMF provides robust imputation of missing values, outperforming bespoke state-of-the-art imputation tools. We further demonstrate how this integrated approach increases statistical power to detect differentially abundant proteins in the downstream data analysis. Hence, omicsGMF is a highly scalable approach to dimensionality reduction in proteomics, that dramatically improves many important steps in proteomics data analysis.