Profiling of the Prognostic Role of Extracellular Matrix-Related Genes in Neuroblastoma Using Databases and Integrated Bioinformatics

Onco Pub Date : 2022-05-19 DOI:10.3390/onco2020007

L. Jahangiri

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引用次数: 1

Abstract

A complex interaction occurs between cancer cells and the extracellular matrix (ECM) in the tumour microenvironment (TME). In this study, the expressions and mutational profiles of 964 ECM-related genes and their correlations with patient overall survival (OS) in neuroblastoma, an aggressive paediatric malignancy, were investigated using cBioPortal and PCAT databases. Furthermore, extended networks comprising protein-protein, protein-long non-coding RNA (lncRNA), and protein-miRNA of 12 selected ECM-related genes were established. The higher expressions of 12 ECM-related genes, AMBN, COLQ, ELFN1, HAS3, HSPE1, LMAN1, LRP5, MUC6, RAMP2, RUVBL2, SSBP1 and UMOD in neuroblastoma patients displayed a significant correlation with patient OS, while similar associations with neuroblastoma patient risk groups, histology and MYCN amplification were obtained. Furthermore, extended gene networks formed by these 12 ECM-related genes were established using Cytoscape, STRING, MSigDB/BioGRID, GeneMANIA and Omicsnet. Finally, the implications of the 12 ECM-related genes in other cancers were revealed using GEPIA2 and the Human Pathology Atlas databases. This meta-analysis showed the significance of these 12 ECM-related genes as putative prognostic predictors in neuroblastoma and other cancers.

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利用数据库和综合生物信息学分析神经母细胞瘤细胞外基质相关基因的预后作用

肿瘤微环境(TME)中癌细胞与细胞外基质(ECM)之间发生复杂的相互作用。在这项研究中，使用cBioPortal和PCAT数据库研究了964个ecm相关基因的表达和突变谱，以及它们与神经母细胞瘤(一种侵袭性儿科恶性肿瘤)患者总生存期(OS)的相关性。此外，还建立了由蛋白-蛋白、蛋白-长非编码RNA (lncRNA)和蛋白- mirna组成的扩展网络，这些网络包含了12个选择的ecm相关基因。AMBN、COLQ、ELFN1、HAS3、HSPE1、LMAN1、LRP5、MUC6、RAMP2、RUVBL2、SSBP1、UMOD等12个ecm相关基因在神经母细胞瘤患者中的高表达与患者OS有显著相关性，与神经母细胞瘤患者风险组、组织学及MYCN扩增也有相似的相关性。此外，利用Cytoscape、STRING、MSigDB/BioGRID、GeneMANIA和Omicsnet等工具，构建了由这12个ecm相关基因组成的扩展基因网络。最后，利用GEPIA2和人类病理图谱数据库揭示了12个ecm相关基因在其他癌症中的意义。这项荟萃分析显示了这12个ecm相关基因作为神经母细胞瘤和其他癌症的推测预后预测因子的重要性。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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Onco

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