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论著.生物信息技术 | 更新时间:2024-04-25
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基于生物信息学方法分析TACSTD2基因与胰腺癌患者预后的关系及其作用机制
Relation of TACSTD2 gene with prognosis of patients with pancreatic cancer and its mechanism: an analysis based on bioinformatics method

广西医学 页码:103-111

作者机构:吴鹏,硕士,主治医师,研究方向为恶性肿瘤的诊治。

基金信息:南京医科大学科技发展基金—一般项目(NMUB20210183)

DOI:10.11675/j.issn.0253⁃4304.2024.01.17

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  • 参考文献

目的 基于生物信息学方法分析肿瘤相关钙信号转导因子2(TACSTD2)基因与胰腺癌患者预后的关系及其作用机制。方法 (1)利用GEPIA和TCGA数据库,分析TACSTD2基因在胰腺癌组织中的表达水平及其与胰腺癌患者临床病理特征的关系。(2)利用GEPIA和TISIDB数据库、COX回归模型分析TACSTD2基因表达水平与胰腺癌患者生存情况的关系。(3)利用R语言软件相应程序包获得TACSTD2基因的共表达基因、不同TACSTD2基因表达水平的胰腺癌患者之间的差异表达基因后,对上述基因进行富集分析。(4)利用R语言软件相应程序包分析TACSTD2基因表达水平与胰腺癌患者免疫微环境评分、胰腺癌组织免疫细胞浸润水平的关系。(5)分析TACSTD2基因表达水平与免疫检查点基因的相关性。(6)基于TCIA数据库、TIMER在线数据库、R语言软件,分别评估分析TACSTD2基因表达水平与胰腺癌患者免疫表型评分(IPS)、胰腺癌常见突变基因、靶向药物和化疗药物敏感性的关系。(7)基于STRING数据库及Cytoscape软件,构建TACSTD2的蛋白⁃蛋白相互作用网络,筛选出与TACSTD2相互作用较为紧密的蛋白。结果 (1)TACSTD2基因在胰腺癌组织中高表达,与胰腺癌患者的病理分级、临床分期、生存情况有关。(2)TACSTD2共表达基因参与免疫系统过程等生物过程;差异表达基因不仅与免疫系统过程、适应性免疫反应、神经活性配体⁃受体相互作用、免疫球蛋白复合物等生物过程或细胞组分有关,还与原发性免疫缺陷等信号通路密切相关。(3)TACSTD2基因表达水平与胰腺癌组织中的M0型巨噬细胞、Treg的浸润水平呈正相关,而与CD8+ T淋巴细胞、激活的或静息的CD4+记忆性T淋巴细胞的浸润水平呈负相关(P<0.05)。TACSTD2高表达水平的胰腺癌患者的各项免疫微环境评分低于低表达水平者(P<0.05),但两者的IPS差异无统计学意义(P>0.05)。(4)TACSTD2基因表达水平与LGALS9、CD40、CD44、VTCN1、TNFRSF14、CD276等免疫检查点基因表达水平呈正相关(P<0.05)。(5)TACSTD2在KRAS、TP53、CDKN2A突变组中的表达水平分别高于相应野生组(P<0.05)。TACSTD2高表达水平患者对曲美替尼和吉非替尼的敏感性高于低表达水平者(P<0.05)。TACSTD2蛋白可能与EGFR、ERBB2、cyclin D1、KRT7蛋白关系密切。结论 TACSTD2可能是评估胰腺癌患者预后的潜在生物标志物,其可能参与胰腺癌的免疫抑制性微环境形成,与胰腺癌常见基因突变及药物敏感性等有关,有望成为诊治胰腺癌的靶点。

Objective To analyze the relation of tumor associated calcium signal transducer 2 (TACSTD2) gene with prognosis of patients with pancreatic cancer and its mechanism based on bioinformatics methods. Methods (1) The databases of GEPIA and TCGA were used to analyze expression of TACSTD2 gene in pancreatic cancerous tissues, and its relation with clinical pathological features of patients with pancreatic cancer. (2) The relation of TACSTD2 gene expression with survival status of cancer with pancreatic patients was analyzed by employing the databases of GEPIA and TISIDB, and COX regression model. (3) After obtaining co⁃expressed genes of TACSTD2 gene and differentially expressed genes between pancreatic cancer patients with different TACSTAD2 gene expressions by using the corresponding packages of R language software, the enrichment analyses were performed on genes as above. (4) The relation of TACSTD2 gene expression with immune microenvironment scores of patients with pancreatic cancer and level of immune cell infiltration in pancreatic cancerous tissues was analyzed by using the corresponding packages of R language software. (5) The correlation of TACSTD2 gene expression with immune checkpoint gene was analyzed. (6) The relations of TACSTD2 gene expression with immunophenoscore (IPS) of patients with pancreatic cancer, commonly mutated genes of pancreatic cancer, and sensitivity to targeted and chemotherapeutic drugs were evaluated and analyzed based on TCIA database, TIMER online database, R language software, respectively. (7) On the basis of STRING database and Cytoscape software, the protein⁃protein interaction network of TACSTD2 was established for screening proteins interacted closely with TACSTD2. Results (1) TACSTD2 gene was highly expressed in pancreatic cancerous tissues, and was related to pathological classification, clinical stage, and survival status of patients with pancreatic cancer. (2) TACSTD2 co⁃expressed genes were involved in biological processes of immune system process, etc. Differentially expressed genes were not only related to biological processes or cellular compositions such as immune system process, adaptive immune response, neuroactive ligand⁃receptor interaction, and immunoglobulin complex, but also closely related to signaling pathways of primary immunodeficiency, etc. (3) TACSTD2 gene expression positively correlated with infiltration levels of type M0 macrophages and Treg in pancreatic cancerous tissues, whereas negatively correlated with infiltration levels of CD8+ T lymphocytes, activated or resting CD4+ memory T lymphocytes (P<0.05). Pancreatic cancer patients with a high TACSTD2 expression obtained low scores of various immune microenvironment as compared with patients with a low expression (P<0.05), but there was no statistically significant difference in IPS between the two (P>0.05). (4) TACSTD2 gene expression positively correlated with expressions of immune checkpoint genes such as LGALS9, CD40, CD44, VTCN1, TNFRSF14, and CD276 (P<0.05). (5) The KRAS, TP53, and CDKN2A mutation groups yielded a higher expression of TACSTD2 as compared with the corresponding wild groups (P<0.05). Patients with a high TACSTD2 expression had higher sensitivity to trametinib and gefitinib than those with a low TACSTD2 expression (P<0.05). TACSTD2 protein might be closely related to EGFR, ERBB2, cyclin D1, and KRT7 proteins. Conclusion TACSTD2 may be regarded as potential biomarkers for evaluating prognosis of patients with pancreatic cancer, and it may be involved in the formation of immunosuppressive microenvironment of pancreatic cancer, and related to common genes mutations and sensitivity to drugs of pancreatic cancer, which is expected to be a target for diagnosing and treating pancreatic cancer.

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