RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer
The effect of immunotherapy strategy has been affirmed in the treatment of various tumors. Nevertheless, the latent role of RNA 5-methylcytosine (m5C) modification in gastric cancer (GC) tumor microenvironment (TME) cell infiltration is still unclear. We systematically explore the m5C modification p...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-10-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2022.905057/full |
| _version_ | 1811257372128051200 |
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| author | Qiang Zhang Qiang Zhang Xiangfei Sun Jianyi Sun Jiangshen Lu Xiaodong Gao Kuntang Shen Xinyu Qin |
| author_facet | Qiang Zhang Qiang Zhang Xiangfei Sun Jianyi Sun Jiangshen Lu Xiaodong Gao Kuntang Shen Xinyu Qin |
| author_sort | Qiang Zhang |
| collection | DOAJ |
| description | The effect of immunotherapy strategy has been affirmed in the treatment of various tumors. Nevertheless, the latent role of RNA 5-methylcytosine (m5C) modification in gastric cancer (GC) tumor microenvironment (TME) cell infiltration is still unclear. We systematically explore the m5C modification patterns of 2,122 GC patients from GEO and TCGA databases by 16 m5C regulators and related these patterns to TME characteristics. LASSO Cox regression was employed to construct the m5Cscore based on the expression of regulators and DEGs, which was used to evaluate the prognosis. All the GC patients were divided into three m5C modification clusters with distinct gene expression characteristics and TME patterns. GSVA, ssGSEA, and TME cell infiltration analysis showed that m5C clusters A, B, and C were classified as immune-desert, immune-inflamed, and immune-excluded phenotype, respectively. The m5Cscore system based on the expression of eight genes could effectively predict the prognosis of individual GC patients, with AUC 0.766. Patients with a lower m5Cscore were characterized by the activation of immunity and experienced significantly longer PFS and OS. Our study demonstrated the non-negligible role of m5C modification in the development of TME complexity and inhomogeneity. Assessing the m5C modification pattern for individual GC patients will help recognize the infiltration characterization and guide more effective immunotherapy treatment. |
| first_indexed | 2024-04-12T17:55:27Z |
| format | Article |
| id | doaj.art-359f722a37ef4664b583c3e0f326e3e6 |
| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-04-12T17:55:27Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj.art-359f722a37ef4664b583c3e0f326e3e62022-12-22T03:22:21ZengFrontiers Media S.A.Frontiers in Immunology1664-32242022-10-011310.3389/fimmu.2022.905057905057RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancerQiang Zhang0Qiang Zhang1Xiangfei Sun2Jianyi Sun3Jiangshen Lu4Xiaodong Gao5Kuntang Shen6Xinyu Qin7Department of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of Gastrointestinal Surgery, the Second People’s Hospital of Lianyungang Affiliated to Kangda College, Nanjing Medical University, Lianyungang, Jiangsu, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaDepartment of General Surgery, Zhongshan Hospital, Fudan University, Shanghai, ChinaThe effect of immunotherapy strategy has been affirmed in the treatment of various tumors. Nevertheless, the latent role of RNA 5-methylcytosine (m5C) modification in gastric cancer (GC) tumor microenvironment (TME) cell infiltration is still unclear. We systematically explore the m5C modification patterns of 2,122 GC patients from GEO and TCGA databases by 16 m5C regulators and related these patterns to TME characteristics. LASSO Cox regression was employed to construct the m5Cscore based on the expression of regulators and DEGs, which was used to evaluate the prognosis. All the GC patients were divided into three m5C modification clusters with distinct gene expression characteristics and TME patterns. GSVA, ssGSEA, and TME cell infiltration analysis showed that m5C clusters A, B, and C were classified as immune-desert, immune-inflamed, and immune-excluded phenotype, respectively. The m5Cscore system based on the expression of eight genes could effectively predict the prognosis of individual GC patients, with AUC 0.766. Patients with a lower m5Cscore were characterized by the activation of immunity and experienced significantly longer PFS and OS. Our study demonstrated the non-negligible role of m5C modification in the development of TME complexity and inhomogeneity. Assessing the m5C modification pattern for individual GC patients will help recognize the infiltration characterization and guide more effective immunotherapy treatment.https://www.frontiersin.org/articles/10.3389/fimmu.2022.905057/full5-methylcytosine (m5C)RNA methylation modificationtumor microenvironmentimmuneprognosism5Cscore |
| spellingShingle | Qiang Zhang Qiang Zhang Xiangfei Sun Jianyi Sun Jiangshen Lu Xiaodong Gao Kuntang Shen Xinyu Qin RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer Frontiers in Immunology 5-methylcytosine (m5C) RNA methylation modification tumor microenvironment immune prognosis m5Cscore |
| title | RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer |
| title_full | RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer |
| title_fullStr | RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer |
| title_full_unstemmed | RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer |
| title_short | RNA m5C regulator-mediated modification patterns and the cross-talk between tumor microenvironment infiltration in gastric cancer |
| title_sort | rna m5c regulator mediated modification patterns and the cross talk between tumor microenvironment infiltration in gastric cancer |
| topic | 5-methylcytosine (m5C) RNA methylation modification tumor microenvironment immune prognosis m5Cscore |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2022.905057/full |
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