肝癌中活化记忆 CD4 和 CD8 T 细胞相关 RNA 的筛选和分析。
Screening and analysis of RNAs associated with activated memory CD4 and CD8 T cells in liver cancer.
机构信息
Department of Infectious Disease, Huzhou Central Hospital, Affiliated Central Hospital Huzhou University, No.1558, Sanhuan North Road, Wuxing District, Huzhou, 313000, Zhejiang Province, China.
Department of Rheumatology, Huzhou Central Hospital, Affiliated Central Hospital Huzhou University, No.1558, Sanhuan North Road, Wuxing District, Huzhou, 313000, Zhejiang Province, China.
出版信息
World J Surg Oncol. 2022 Jan 4;20(1):2. doi: 10.1186/s12957-021-02461-6.
BACKGROUND
Liver cancer is one of the most common malignant tumors in the world. T cell-mediated antitumor immune response is the basis of liver cancer immunotherapy.
OBJECTIVE
To screen and analyze the RNAs associated with activated memory CD4 T cells and CD8 T cells in liver cancer.
METHODS
ESTIMATE was used to calculate the stromal and immune scores of tumor samples, which were downloaded from The Cancer Genome Atlas (TCGA). The differentially expressed genes (DEGs) in high and low stromal and immune scores were screened, followed by functional enrichment of overlapped DEGs. We then conducted a survival analysis to identify immune-related prognostic indicators and constructed protein-protein interaction (PPI) networks and ceRNA networks. Finally, chemical small-molecule-target interaction pairs associated with liver cancer were screened.
RESULTS
A total of 55,955 stromal-related DEGs and 1811 immune-related DEGs were obtained. The 1238 overlapped DEGs were enriched in 1457 biological process terms and 74 KEGG pathways. In addition, a total of 120 activated memory CD4 T cell-related genes and 309 CD8 T cell-related genes were identified. The survival analysis revealed that upregulated expression of T cell-related genes including EOMES, CST7, and CD5L indicated the favorable prognosis of liver cancer. EOMES was regulated by has-miR-23b-3p and has-miR-23b-3p was regulated by lncRNA AC104820.2 in the ceRNA network of activated memory CD4 T cell-related genes. In addition, EOMES was regulated by has-miR-23a-3p and has-miR-23a-3p was regulated by lncRNA AC000476.1 in the ceRNA network of CD8 T cells.
CONCLUSION
T cell-related RNAs EOMES, CST7, CD5L, has-miR-23b-3p, and has-miR-23a-3p may be associated with the prognosis of liver cancer. And the molecular characteristics of these T cell-related genes were plotted.
背景
肝癌是世界上最常见的恶性肿瘤之一。T 细胞介导的抗肿瘤免疫反应是肝癌免疫治疗的基础。
目的
筛选和分析肝癌中激活的记忆 CD4 T 细胞和 CD8 T 细胞相关的 RNA。
方法
使用 ESTIMATE 计算从癌症基因组图谱（TCGA）下载的肿瘤样本的基质和免疫评分。筛选高和低基质和免疫评分的差异表达基因（DEGs），然后对重叠 DEGs 进行功能富集。接着进行生存分析，以确定免疫相关的预后指标，并构建蛋白质-蛋白质相互作用（PPI）网络和 ceRNA 网络。最后，筛选与肝癌相关的化学小分子-靶相互作用对。
结果
共获得 55955 个基质相关 DEGs 和 1811 个免疫相关 DEGs。1238 个重叠 DEGs 富集在 1457 个生物学过程术语和 74 个 KEGG 途径中。此外，共鉴定出 120 个激活的记忆 CD4 T 细胞相关基因和 309 个 CD8 T 细胞相关基因。生存分析表明，上调表达的 EOMES、CST7 和 CD5L 等 T 细胞相关基因提示肝癌预后良好。EOMES 受 has-miR-23b-3p 的调控，而 has-miR-23b-3p 又受 lncRNA AC104820.2 的调控，这是在激活的记忆 CD4 T 细胞相关基因的 ceRNA 网络中。此外，EOMES 受 has-miR-23a-3p 的调控，而 has-miR-23a-3p 又受 lncRNA AC000476.1 的调控，这是在 CD8 T 细胞的 ceRNA 网络中。
结论
EOMES、CST7、CD5L、has-miR-23b-3p 和 has-miR-23a-3p 等 T 细胞相关 RNA 可能与肝癌的预后有关。并绘制了这些 T 细胞相关基因的分子特征。
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