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Colorectal cancer (CRC) is a leading cause of cancer-related deaths worldwide, characterized by high incidence and poor survival rates. Glycosylation, a fundamental post-translational modification, influences protein stability, signaling, and tumor progression, with aberrations implicated in immune evasion and metastasis. This study investigates the role of glycosylation-related genes (Glycosylation-RGs) in CRC using machine learning and bioinformatics. Data from The Cancer Genome Atlas (TCGA) and the Molecular Signatures Database (MSigDB) were analyzed to identify 67 differentially expressed Glycosylation-RGs. These genes were used to classify CRC patients into two subgroups with distinct survival outcomes, highlighting their prognostic value. Weighted gene coexpression network analysis (WGCNA) revealed key modules associated with CRC traits, including pathways like glycan biosynthesis and PI3K-Akt signaling. A machine-learning-based prognostic model demonstrated strong predictive performance, stratifying patients into high- and low-risk groups with significant survival differences. Additionally, the model revealed correlations between risk scores and immune cell infiltration, providing insights into the tumor immune microenvironment. Drug sensitivity analysis identified potential therapeutic agents, including Trametinib, SCH772984, and Oxaliplatin, showing differential efficacy between risk groups. These findings enhance our understanding of glycosylation in CRC, identifying it as a critical factor in disease progression and a promising target for future therapeutic strategies.
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http://dx.doi.org/10.3390/ijms26041648 | DOI Listing |
PLoS One
August 2025
Department of Nephrology, Zhengzhou University People's Hospital, Henan Provincial People's Hospital, Zhengzhou, Henan, China.
Background: Diabetic kidney disease (DKD) is a severe global complication of diabetes, yet its molecular mechanisms remain incompletely understood. This study aimed to investigate the role of protein glycosylation in DKD pathogenesis and its association with gene expression changes, with the goal of identifying diagnostic biomarkers and personalized therapeutic targets.
Methods: Integrated bioinformatics and machine learning approaches were applied to analyze multiple gene expression datasets.
Front Oncol
July 2025
Molecular Cell Biology and Immunology, Amsterdam UMC location Vrije Universiteit Amsterdam, Amsterdam, Netherlands.
Background: Aberrant glycosylation is associated with cancer progression and patient survival, of which the driving genes could act as biomarkers. Our objective was to characterize the expression of glycosylation-related genes to elucidate the heterogeneity between lung adenocarcinoma (LUAD) and lung squamous cell carcinoma (LUSC), and their prospective diagnostic utility.
Methods: mRNA expression data for all glyco-relevant genes was collected from 553 LUSC and 576 LUAD patients from the TCGA dataset.
Front Immunol
July 2025
Department of Critical Care Medicine, Fuxing Hospital, Capital Medical University, Beijing, China.
Sepsis is a life-threatening condition caused by a dysregulated host response to infection and is one of the leading causes of morbidity and mortality worldwide. Glycosylation is one of the key modes of protein modification, affecting protein folding, transportation, and localization. Glycosylation patterns are closely related to sepsis, but their specific impact still needs further investigation.
View Article and Find Full Text PDFXi Bao Yu Fen Zi Mian Yi Xue Za Zhi
August 2025
Discipline of Chinese and Western Integrative Medicine, Jiangxi University of Traditional Chinese Medicine, Integrated Chinese and Western Medicine Institute for Children Health & Drug Innovation, Jiangxi University of Traditional Chinese Medicine, Nanchang 330004, China. *Corresponding authors, E-m
Objective Through integrative bioinformatics analysis of multi-source transcriptomic data, potential biomarkers to asthma epithelial cells were identified. The expression of these candidate target was subsequently validated in lung tissues and epithelial cells from asthma models. Methods The gene expression profile data of epithelial cells from three asthma patient cohorts and corresponding healthy controls were integrated from the Gene Expression Omnibus (GEO) database.
View Article and Find Full Text PDFBiotechnol J
July 2025
Department of Bioengineering, Clemson University, Clemson, South Carolina, USA.
Chinese hamster ovary (CHO) cells are widely used in recombinant biopharmaceutical production; yet, yields remain low, leading to high market prices. Improving product yield and quality has heavily relied on empirical characterization with limited insight into internal molecular dynamics. RNA-seq offers a powerful alternative to understand intracellular responses to process changes through gene expression measurement.
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