Screening and analysis of RNAs associated with activated memory CD4 and CD8 T cells in liver cancer

Abstract

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.

Cervical cancer immune infiltration microenvironment identification, construction of immune scores, assisting patient prognosis and immunotherapy

“…ITGA5 is a crucial immunotherapy predictive target that is thought to be crucial in the incidence and progression of many cancers (70)(71)(72). CST7 is associated with activation of CD4T and CD8T cells in liver cancer (73). In our study, IL1B and ITGA were up-regulated in cervical cancer, while CST7 was down-regulated in cervical cancer, we conducted cell experiments on 3 key genes, and the results showed that downregulation of IL1B and ITGA5 and overexpression of CST7 could reduce the growth and migration ability of cervical cancer cells.…”

Integrated analysis of ceRNA network reveals potential prognostic Hint1-related lncRNAs involved in hepatocellular carcinoma progression

“…Interestingly, in this core network, these three hub DElncRNAs regulated 77% of the DEmRNAs through 24 miRNAs, confirming their importance in the network. Among these 24 miRNAs, miR-23b-3p was reported to be involved in the epithelial-mesenchymal transition (EMT) of HCC by targeting EOMES mRNA [ 40 ], and miR-10a-5p has also been proved to be associated with migration and invasion in HCC cells [ 41 ]. At the same time, the apoptosis-related gene PIM1 [ 42 ], proliferation-related gene CCND1 [ 43 ], migration- and invasion-related gene BMPR2 [ 44 ], and tumor immunocyte infiltration-related gene IFNAR1 also appeared in the core network [ 45 ].…”

Construction and experimental verification of user-friendly molecular subtypes mediated by immune-associated genes in hepatocellular carcinoma

“…The cellular immune response is one of the antitumor immune responses, which is mainly dominated by T lymphocyte subsets. Clinical studies have shown (19): when the body's immune function is enhanced, the proportion of CD8+ T lymphocytes in immune cell subsets increases significantly; while CD8+ T lymphocytes are effector T lymphocytes, which are involved in the body's immune response.During this process, it plays the role of killing antigens, including cancer antigens, which can reflect the cellular immune status of the body (20,21). It has been proved in liver cancer that the number of CD8+ T cells infiltrated in tumor tissue is positively correlated with prognosis, that is, the more CD8+ T cells infiltrated in liver cancer tissue, the…”