基于加权基因共表达网络分析挖掘舌鳞状细胞癌的关键基因

doi:10.13701/j.cnki.kqyxyj.2020.05.006

口腔医学研究 ›› 2020, Vol. 36 ›› Issue (5): 423-427.DOI: 10.13701/j.cnki.kqyxyj.2020.05.006

基于加权基因共表达网络分析挖掘舌鳞状细胞癌的关键基因

李天客^1*, 张影², 张素欣¹, 陈中¹, 包阳¹, 张冠华¹

1.河北医科大学第四医院口腔科河北石家庄 050011;
2.河北省石家庄市第三医院口腔科河北石家庄 050011

收稿日期:2019-08-05 出版日期:2020-06-16 发布日期:2020-06-18
通讯作者: ^* 李天客,E-mail:185563122@qq.com
作者简介:李天客(1983~ ),男,河北邯郸人,硕士,主治医师,研究方向:口腔颌面部肿瘤。

Identification of Hub Genes in Tongue Squamous Cell Carcinoma Based on Weighted Gene Co-expression Network Analysis

LI Tianke^1*, ZHANG Ying², ZHANG Suxin¹ , CHEN Zhong¹, BAO Yang¹, ZHANG Guanhua¹

1. Department of Stomatology, The Fourth Hospital of Hebei Medical University, Shijiazhuang 050011, China;
2. Department of Stomatology, The Third Hospital of Shijiazhuang City, Shijiazhuang 050011, China

Received:2019-08-05 Online:2020-06-16 Published:2020-06-18

摘要/Abstract

摘要： 目的:舌鳞状细胞癌(TSCC)是头颈部最常见的恶性肿瘤之一,其分子机制尚不清楚。挖掘与舌鳞状细胞癌(TSCC)密切相关的hub基因,为揭示TSCC发病机制提供理论依据。方法:从基因表达综合数据库(GEO)下载GSE34105数据,通过 WGCNA筛选关键模块,Cytoscape计算模块网络中节点的拓扑参数筛选hub基因,生存分析用于hub基因的外部验证,通过GO和KEGG富集分析和GSEA分析获取hub基因参与的生物过程。结果:获得与TSCC最密切相关的turquoise 模块(Cor=0.88,P<0.05)。cytoscape筛选获得2个hub基因分别为CAP1和TMBIM6,是预后的不良因素,它们的高表达与患者生存期缩短显著相关(P<0.05)。GSEA分析它们高表达组主要参与了半胱氨酸和蛋氨酸代谢、霍乱弧菌感染、氧化磷酸化、DNA复制、基底切除修复、细胞减数分裂、蛋白质生成、果糖和甘露糖代谢、幽门螺杆菌感染中的上皮细胞信号转导。结论:本研究通过构建基因共表达网络筛选出2个hub基因,可能成为潜在的TSCC基因基因生物标志物,影响TSCC的发生及预后。

关键词: WGCNA, 舌鳞状细胞癌, 发病机制, hub基因

Abstract: Objective: To excavate hub genes closely related to tongue squamous cell carcinoma (TSCC). Methods: GSE34105 dataset was downloaded from Gene Expression Omnibus Database (GEO). Key modules were screened by weighted gene co-expression network analysis (WGCNA). Hub genes were screened by topological parameters of nodes in module networks, and survival analysis was used for external verification of hub genes. GO and KEGG enriched analysis and GSEA analysis were performed to obtain the biological processes involved in hub genes. Results: The turquoise module (Cor=0.88, P<0.05) which was most closely related to TSCC was obtained. Two hub genes, CAP1 and TMBIM6, were obtained based on Cytoscape, which were adverse prognostic factors. Their high expression was significantly associated with shortening the survival time of patients (P<0.05). GSEA analysis of their high expression group was mainly involved in cysteine and methionine metabolism, Vibrio cholerae infection, oxidative phosphorylation, DNA replication, basal excision repair, cell meiosis, protein production, fructose and mannose metabolism, Helicobacter pylori Epithelial signal transduction in infection. Conclusion: This study screened two hub genes by constructing a gene co-expression network, which may become a potential biomarker of TSCC gene, affecting the occurrence and prognosis of TSCC.

Key words: WGCNA, tongue squamous cell carcinoma, pathogenesis, hub genes

李天客, 张影, 张素欣, 陈中, 包阳, 张冠华. 基于加权基因共表达网络分析挖掘舌鳞状细胞癌的关键基因[J]. 口腔医学研究, 2020, 36(5): 423-427.

LI Tianke, ZHANG Ying, ZHANG Suxin, CHEN Zhong, BAO Yang, ZHANG Guanhua. Identification of Hub Genes in Tongue Squamous Cell Carcinoma Based on Weighted Gene Co-expression Network Analysis[J]. Journal of Oral Science Research, 2020, 36(5): 423-427.

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基于加权基因共表达网络分析挖掘舌鳞状细胞癌的关键基因

Identification of Hub Genes in Tongue Squamous Cell Carcinoma Based on Weighted Gene Co-expression Network Analysis

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