Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma
Copper participates in biological processes such as oxygen metabolism and iron uptake, and is a key factor in immune regulation. Based on the transcription data, mutation data and clinical data of colon adenocarcinoma (COAD) patients from The Cancer Genome Atlas (TCGA) database and Gene Expression P...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-09-01
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| Series: | Frontiers in Oncology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fonc.2022.959273/full |
| _version_ | 1798035790359429120 |
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| author | Jianwei Lin Bixian Luo Xinbo Yu Zheyu Yang Mingliang Wang Mingliang Wang Wei Cai |
| author_facet | Jianwei Lin Bixian Luo Xinbo Yu Zheyu Yang Mingliang Wang Mingliang Wang Wei Cai |
| author_sort | Jianwei Lin |
| collection | DOAJ |
| description | Copper participates in biological processes such as oxygen metabolism and iron uptake, and is a key factor in immune regulation. Based on the transcription data, mutation data and clinical data of colon adenocarcinoma (COAD) patients from The Cancer Genome Atlas (TCGA) database and Gene Expression Profiling Interactive Analysis (GEPIA2) database, the expression and mutation of copper metabolization-related genes in COAD patients and their correlation with tumor immune microenvironment were analyzed. Copper metabolization-related genes (CMRGs) were used to construct COAD subtypes and prognostic risk models for COAD patients. Furthermore, Kaplan-Meier (K-M) curve and receiver operating characteristic (ROC) curve were used to analyze the clinical value of COAD subtypes and genotyping models in distinguishing clinical characteristics of patients, and the immune infiltration of patients with different genotypes was analyzed. Finally, the clinical tissue samples from COAD patients were used to analyze the mRNA expression of genes in risk model between tumor and normal tissues by the method of Polymerase Chain Reaction (PCR). Of the 479 CMRGs, 68 genes were differentially expressed in normal and tumor tissues of COAD patients in TCGA and GEPIA2. Two subtypes with different clinical and immunological characteristics were identified by using 482 genes related to copper metabolism. Finally, a prognostic risk model consisting of five CMRGs was constructed, which could not only predict the prognosis of patients, but also correlated with COAD subtypes. In addition, some genes (glutathione S-transferase mu 1, cyclin D1and cytochrome P450 family 2 subfamily S member 1) in risk model was show significant difference between normal and tumor tissues. The COAD subtypes identified by CMRGs can help clinically distinguish patients with different prognosis and tumor progression, and the risk score can assist in clinical evaluation of patient prognosis, serving as a valuable biomarker for COAD immunotherapy. |
| first_indexed | 2024-04-11T21:03:09Z |
| format | Article |
| id | doaj.art-9caf2de6482e434ea1bc3fa987b43a84 |
| institution | Directory Open Access Journal |
| issn | 2234-943X |
| language | English |
| last_indexed | 2024-04-11T21:03:09Z |
| publishDate | 2022-09-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Oncology |
| spelling | doaj.art-9caf2de6482e434ea1bc3fa987b43a842022-12-22T04:03:26ZengFrontiers Media S.A.Frontiers in Oncology2234-943X2022-09-011210.3389/fonc.2022.959273959273Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinomaJianwei Lin0Bixian Luo1Xinbo Yu2Zheyu Yang3Mingliang Wang4Mingliang Wang5Wei Cai6Department of General Surgery, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of General Surgery, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of Urology, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of General Surgery, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of General Surgery, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of General Surgery, Ruijin Hospital Luwan Branch, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaDepartment of General Surgery, Ruijin Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai, ChinaCopper participates in biological processes such as oxygen metabolism and iron uptake, and is a key factor in immune regulation. Based on the transcription data, mutation data and clinical data of colon adenocarcinoma (COAD) patients from The Cancer Genome Atlas (TCGA) database and Gene Expression Profiling Interactive Analysis (GEPIA2) database, the expression and mutation of copper metabolization-related genes in COAD patients and their correlation with tumor immune microenvironment were analyzed. Copper metabolization-related genes (CMRGs) were used to construct COAD subtypes and prognostic risk models for COAD patients. Furthermore, Kaplan-Meier (K-M) curve and receiver operating characteristic (ROC) curve were used to analyze the clinical value of COAD subtypes and genotyping models in distinguishing clinical characteristics of patients, and the immune infiltration of patients with different genotypes was analyzed. Finally, the clinical tissue samples from COAD patients were used to analyze the mRNA expression of genes in risk model between tumor and normal tissues by the method of Polymerase Chain Reaction (PCR). Of the 479 CMRGs, 68 genes were differentially expressed in normal and tumor tissues of COAD patients in TCGA and GEPIA2. Two subtypes with different clinical and immunological characteristics were identified by using 482 genes related to copper metabolism. Finally, a prognostic risk model consisting of five CMRGs was constructed, which could not only predict the prognosis of patients, but also correlated with COAD subtypes. In addition, some genes (glutathione S-transferase mu 1, cyclin D1and cytochrome P450 family 2 subfamily S member 1) in risk model was show significant difference between normal and tumor tissues. The COAD subtypes identified by CMRGs can help clinically distinguish patients with different prognosis and tumor progression, and the risk score can assist in clinical evaluation of patient prognosis, serving as a valuable biomarker for COAD immunotherapy.https://www.frontiersin.org/articles/10.3389/fonc.2022.959273/fullcopper metabolismmicroenvironmentcolon adenocarcinoma (COAD)risk scorenomogram |
| spellingShingle | Jianwei Lin Bixian Luo Xinbo Yu Zheyu Yang Mingliang Wang Mingliang Wang Wei Cai Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma Frontiers in Oncology copper metabolism microenvironment colon adenocarcinoma (COAD) risk score nomogram |
| title | Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| title_full | Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| title_fullStr | Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| title_full_unstemmed | Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| title_short | Copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| title_sort | copper metabolism patterns and tumor microenvironment characterization in colon adenocarcinoma |
| topic | copper metabolism microenvironment colon adenocarcinoma (COAD) risk score nomogram |
| url | https://www.frontiersin.org/articles/10.3389/fonc.2022.959273/full |
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