Comprehensive analysis to identify pseudogenes/lncRNAs-hsa-miR-200b-3p-COL5A2 network as a prognostic biomarker in gastric cancer.

IF 2.7 3区生物学

Hereditas Pub Date : 2022-11-29 DOI:10.1186/s41065-022-00257-6

Peiyuan Li, Wenbin Ji, Zhiwang Wei, Xiulan Wang, Gangjie Qiao, Chao Gao, Yifan Wang, Feng Qi

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引用次数: 1

Abstract

Objective: Gastric cancer is one of the most common and deadly types of cancer. The molecular mechanism of gastric cancer progression remains unclear.

Materials and methods: Four hub genes were identified through GEO and TCGA database screening and analysis. Prognostic analysis revealed that COL5A2 was the most likely to affect the prognosis of gastric cancer among the four hub genes. The relationships between COL5A2 and clinical variables and immune cell infiltration were analyzed. Then, COL5A2 was analyzed for single-gene differences and related functional enrichment. Using the starBase database for prediction and analysis, miRNAs and pseudogenes/lncRNAs that might combine with COL5A2 were identified; thus, the ceRNA network was constructed. Finally, the network was verified by Cox analysis and qPCR, and a nomogram was constructed.

Results: First, we found that COL5A2, COL12A1, BGN and THBS2 were highly expressed in gastric cancer. COL5A2 had statistical significance in overall survival (OS), disease-specific survival (DSS), and progression-free interval (PFI) analysis. Immune infiltration analysis suggested that COL5A2 might influence the changes in the tumor immune microenvironment. The StarBase database was used to predict that 3 pseudogenes and 7 lncRNAs might inhibit the hsa-miR-200b-3p-COL5A2 axis in gastric cancer. The pseudogenes/lncRNA-hsa-miR-200b-3p-COL5A2 ceRNA network was identified and verified using Cox regression analysis and PCR. Finally, we constructed a nomogram.

Conclusions: We elucidated the regulatory role of the pseudogenes/lncRNA-hsa-miR-200b-3p-COL5A2 network in gastric cancer progression and constructed a nomogram. These studies may provide effective treatments and potential prognostic biomarkers for gastric cancer.

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综合分析鉴定假基因/lncRNAs-hsa-miR-200b-3p-COL5A2网络作为胃癌预后生物标志物。

目的:胃癌是最常见、最致命的癌症之一。胃癌进展的分子机制尚不清楚。材料与方法:通过GEO和TCGA数据库筛选分析，鉴定出4个枢纽基因。预后分析显示，COL5A2是四个枢纽基因中最可能影响胃癌预后的基因。分析COL5A2与临床变量及免疫细胞浸润的关系。然后分析COL5A2的单基因差异和相关功能富集。利用starBase数据库进行预测和分析，鉴定出可能与COL5A2结合的mirna和假基因/ lncrna;因此，构建了ceRNA网络。最后，通过Cox分析和qPCR对网络进行验证，并构建模态图。结果:首先，我们发现COL5A2、COL12A1、BGN和THBS2在胃癌中高表达。COL5A2在总生存期(OS)、疾病特异性生存期(DSS)和无进展间期(PFI)分析中具有统计学意义。免疫浸润分析提示COL5A2可能影响肿瘤免疫微环境的变化。利用StarBase数据库预测3个假基因和7个lncRNAs可能在胃癌中抑制hsa-miR-200b-3p-COL5A2轴。假基因/lncRNA-hsa-miR-200b-3p-COL5A2 ceRNA网络通过Cox回归分析和PCR进行鉴定和验证。最后，我们构造了一个nomogram。结论:我们阐明了假基因/lncRNA-hsa-miR-200b-3p-COL5A2网络在胃癌进展中的调控作用，并构建了nomogram。这些研究可能为胃癌提供有效的治疗方法和潜在的预后生物标志物。

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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来源期刊

Hereditas Biochemistry, Genetics and Molecular Biology-Genetics

CiteScore

3.80

自引率

3.70%

发文量

期刊介绍： For almost a century, Hereditas has published original cutting-edge research and reviews. As the Official journal of the Mendelian Society of Lund, the journal welcomes research from across all areas of genetics and genomics. Topics of interest include human and medical genetics, animal and plant genetics, microbial genetics, agriculture and bioinformatics.