A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer
Long noncoding RNAs have a major role in tumorigenesis, development, and metastasis in colorectal cancer (CRC), participate in the regulation of cell senescence and are related to the prognosis of CRC. Therefore, it is important to validate cell senescence-related lncRNAs that correlate with prognos...
| Main Authors: | , , , , |
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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.2022.1019764/full |
| _version_ | 1811196392168751104 |
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| author | Chengfei Xu Chengfei Xu Fanghan Li Fanghan Li Zilin Liu Zilin Liu Chuanjing Yan Chuanjing Yan Jiangwei Xiao Jiangwei Xiao |
| author_facet | Chengfei Xu Chengfei Xu Fanghan Li Fanghan Li Zilin Liu Zilin Liu Chuanjing Yan Chuanjing Yan Jiangwei Xiao Jiangwei Xiao |
| author_sort | Chengfei Xu |
| collection | DOAJ |
| description | Long noncoding RNAs have a major role in tumorigenesis, development, and metastasis in colorectal cancer (CRC), participate in the regulation of cell senescence and are related to the prognosis of CRC. Therefore, it is important to validate cell senescence-related lncRNAs that correlate with prognosis in CRC.MethodsCRC expression profile data and clinical information were downloaded from TCGA. A gene list related to cellular senescence was obtained from Human Aging Genomic Resources. A coexpression network of cell senescence-related mRNA−lncRNA was explored with R. Six cell senescence-related lncRNA signatures were identified by univariate and multivariate analyses. The cell senescence-related risk model was generated by using six cell senescence-related lncRNAs, and the risk score was calculated. Furthermore, an internal validation set and GSE17537 were used to verify the risk model. The risk model demonstrated good stability and accuracy. Finally, we investigated the correlation between cell senescence-related risk scores and immune infiltration, immune function, immune checkpoints, and drug sensitivity.ResultWe established a signature of six cell senescence-related lncRNAs. The cell senescence-related risk model revealed an exceptional ability to assess the prognosis of colorectal cancer and was correlated with clinical features. Additionally, we observed that risk models correlate with the tumor microenvironment and immune checkpoints, potentially predicting patient response to clinical immunotherapy. Finally, we validated the correlation between the cell senescence-related risk model and drug susceptibility. Our findings indicated that AICAR, cisplatin, nilotinib, and bexarotene exhibited lower IC50 values in the high-risk group.ConclusionOur current study identified 6 cell senescence-associated lncRNA signatures that may be vital biomarkers to predict the prognostic features and immune and chemotherapy responses in CRC. |
| first_indexed | 2024-04-12T00:57:11Z |
| format | Article |
| id | doaj.art-980f55928e424d0eb64ae37e0ade47fe |
| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-04-12T00:57:11Z |
| publishDate | 2022-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj.art-980f55928e424d0eb64ae37e0ade47fe2022-12-22T03:54:35ZengFrontiers Media S.A.Frontiers in Immunology1664-32242022-10-011310.3389/fimmu.2022.10197641019764A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancerChengfei Xu0Chengfei Xu1Fanghan Li2Fanghan Li3Zilin Liu4Zilin Liu5Chuanjing Yan6Chuanjing Yan7Jiangwei Xiao8Jiangwei Xiao9Department of Gastrointestinal Surgery, The First Affiliated Hospital of Chengdu Medical College, Chengdu Medical College, Chengdu, ChinaSchool of Clinical Medicine, Chengdu Medical College, Chengdu, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Chengdu Medical College, Chengdu Medical College, Chengdu, ChinaSchool of Clinical Medicine, Chengdu Medical College, Chengdu, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Chengdu Medical College, Chengdu Medical College, Chengdu, ChinaSchool of Clinical Medicine, Chengdu Medical College, Chengdu, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Chengdu Medical College, Chengdu Medical College, Chengdu, ChinaSchool of Clinical Medicine, Chengdu Medical College, Chengdu, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Chengdu Medical College, Chengdu Medical College, Chengdu, ChinaSchool of Clinical Medicine, Chengdu Medical College, Chengdu, ChinaLong noncoding RNAs have a major role in tumorigenesis, development, and metastasis in colorectal cancer (CRC), participate in the regulation of cell senescence and are related to the prognosis of CRC. Therefore, it is important to validate cell senescence-related lncRNAs that correlate with prognosis in CRC.MethodsCRC expression profile data and clinical information were downloaded from TCGA. A gene list related to cellular senescence was obtained from Human Aging Genomic Resources. A coexpression network of cell senescence-related mRNA−lncRNA was explored with R. Six cell senescence-related lncRNA signatures were identified by univariate and multivariate analyses. The cell senescence-related risk model was generated by using six cell senescence-related lncRNAs, and the risk score was calculated. Furthermore, an internal validation set and GSE17537 were used to verify the risk model. The risk model demonstrated good stability and accuracy. Finally, we investigated the correlation between cell senescence-related risk scores and immune infiltration, immune function, immune checkpoints, and drug sensitivity.ResultWe established a signature of six cell senescence-related lncRNAs. The cell senescence-related risk model revealed an exceptional ability to assess the prognosis of colorectal cancer and was correlated with clinical features. Additionally, we observed that risk models correlate with the tumor microenvironment and immune checkpoints, potentially predicting patient response to clinical immunotherapy. Finally, we validated the correlation between the cell senescence-related risk model and drug susceptibility. Our findings indicated that AICAR, cisplatin, nilotinib, and bexarotene exhibited lower IC50 values in the high-risk group.ConclusionOur current study identified 6 cell senescence-associated lncRNA signatures that may be vital biomarkers to predict the prognostic features and immune and chemotherapy responses in CRC.https://www.frontiersin.org/articles/10.3389/fimmu.2022.1019764/fulllong non-coding RNAs(lncRNAs)colorectal cancerimmune cell infiltratecell senescencesurvival analysissurvival model. |
| spellingShingle | Chengfei Xu Chengfei Xu Fanghan Li Fanghan Li Zilin Liu Zilin Liu Chuanjing Yan Chuanjing Yan Jiangwei Xiao Jiangwei Xiao A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer Frontiers in Immunology long non-coding RNAs(lncRNAs) colorectal cancer immune cell infiltrate cell senescence survival analysis survival model. |
| title | A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer |
| title_full | A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer |
| title_fullStr | A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer |
| title_full_unstemmed | A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer |
| title_short | A novel cell senescence-related IncRNA survival model associated with the tumor immune environment in colorectal cancer |
| title_sort | novel cell senescence related incrna survival model associated with the tumor immune environment in colorectal cancer |
| topic | long non-coding RNAs(lncRNAs) colorectal cancer immune cell infiltrate cell senescence survival analysis survival model. |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2022.1019764/full |
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