Role of glycosphingolipid biosynthesis coregulators in malignant progression of thymoma

As the most common malignancy from mediastinum, the metabolic reprogramming of thymoma is important in its development. Nevertheless, the connection between the metabolic map and thymoma development is yet to be discovered. Thymoma was categorized into three subcategories by unsupervised clustering...

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Bibliographic Details
Published in:International journal of biological sciences 2023-01, Vol.19 (14), p.4442-4456
Main Authors: Zhang, Xin, Zeng, Bo, Zhu, Haoshuai, Ma, Rui, Yuan, Ping, Chen, Zhenguang, Su, Chunhua, Liu, Zhihao, Yao, Xiaojing, Lawrence, Aurora, Liu, Zhenguo, Zou, Jianyong
Format: Article
Language:English
Subjects:
Accuracy
Algorithms
Biomarkers
Biosynthesis
Cancer
Cluster analysis
Clustering
Decision trees
Encyclopedias
Enrichment
Enzymes
Gene expression
Gene set enrichment analysis
Genes
Genomes
Machine learning
Malignancy
Mass spectrometry
Mediastinum
Medical prognosis
Metabolic pathways
Metabolism
Metabolites
Metabolomics
Prognosis
Research Paper
Scientific imaging
Software
Survival analysis
Thoracic surgery
Thymoma
Thymus
Transcriptomics
Tumors
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Summary:As the most common malignancy from mediastinum, the metabolic reprogramming of thymoma is important in its development. Nevertheless, the connection between the metabolic map and thymoma development is yet to be discovered. Thymoma was categorized into three subcategories by unsupervised clustering of molecular markers for metabolic pathway presentation in the TCGA dataset. Different genes and functions enriched were demonstrated through the utilization of metabolic Gene Ontology (GO) analysis. To identify the main contributors in the development of thymic malignancy, we utilized Gene Set Enrichment Analysis (GSEA), Gene Set Variation Analysis (GSVA), and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis. The prognosis of thymoma was evaluated by screening the essential pathways and genes using GSVA scores and machine learning classifiers. Furthermore, we integrated the transcriptomics findings with spectrum metabolomics investigation, detected through LC-MS/MS, in order to establish the essential controller network of metabolic reprogramming during thymoma progression. The thymoma prognosis is related to glycosphingolipid biosynthesis-lacto and neolacto series pathway, of what high B3GNT5 indicate poor survival. The investigation revealed that glycosphingolipid charts have a significant impact on metabolic dysfunction and could potentially serve as crucial targets in the clinical advancement of metabolic therapy.
ISSN:1449-2288
1449-2288
DOI:10.7150/ijbs.83468