Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer
Colon cancer (CC) is one of the most frequent malignancies in the world, with a high rate of morbidity and death. In CC, necroptosis and long noncoding RNA (lncRNAs) are crucial, but the mechanism is not completely clear. The goal of this study was to create a new signature that might predict patien...
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Frontiers Media S.A.
2022-02-01
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| Series: | Frontiers in Molecular Biosciences |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmolb.2022.811269/full |
| _version_ | 1819279027962118144 |
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| author | Li Liu Liu Huang Wenzheng Chen Guoyang Zhang Yebei Li Yukang Wu Jianbo Xiong Zhigang Jie |
| author_facet | Li Liu Liu Huang Wenzheng Chen Guoyang Zhang Yebei Li Yukang Wu Jianbo Xiong Zhigang Jie |
| author_sort | Li Liu |
| collection | DOAJ |
| description | Colon cancer (CC) is one of the most frequent malignancies in the world, with a high rate of morbidity and death. In CC, necroptosis and long noncoding RNA (lncRNAs) are crucial, but the mechanism is not completely clear. The goal of this study was to create a new signature that might predict patient survival and tumor immunity in patients with CC. Expression profiles of necroptosis-related lncRNAs in 473 patients with CC were retrieved from the TCGA database. A consensus clustering analysis based on differentially expressed (DE) genes and a prognostic model based on least absolute shrinkage and selection operator (LASSO) regression analysis were conducted. Clinicopathological correlation analysis, expression difference analysis, PCA, TMB, GO analysis, KEGG enrichment analysis, survival analysis, immune correlation analysis, prediction of clinical therapeutic compounds, and qRT–PCR were also conducted. Fifty-six necroptosis-related lncRNAs were found to be linked to the prognosis, and consensus clustering analysis was performed. There were substantial variations in survival, immune checkpoint expression, clinicopathological correlations, and tumor immunity among the different subgroups. Six lncRNAs were discovered, and patients were split into high-risk and low-risk groups based on a risk score generated using these six lncRNAs. The survival time of low-risk patients was considerably longer than that of high-risk patients, indicating that these lncRNAs are directly associated with survival. The risk score was associated with the tumor stage, infiltration depth, lymph node metastasis, and distant metastasis. After univariate and multivariate Cox regression analysis, the risk score and tumor stage remained significant. Cancer- and metabolism-related pathways were enriched by KEGG analyses. Immune infiltration was shown to differ significantly between high- and low-risk patients in a tumor immunoassay. Eight compounds were screened out, and qRT–PCR confirmed the differential expression of the six lncRNAs. Overall, in CC, necroptosis-related lncRNAs have an important function, and the prognosis of patients with CC can be predicted by these six necroptosis-related lncRNAs. They may be useful in the future for customized cancer therapy. |
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| language | English |
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| spelling | doaj.art-dae992d9ae1943319250c390715dd75c2022-12-21T17:24:34ZengFrontiers Media S.A.Frontiers in Molecular Biosciences2296-889X2022-02-01910.3389/fmolb.2022.811269811269Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon CancerLi Liu0Liu Huang1Wenzheng Chen2Guoyang Zhang3Yebei Li4Yukang Wu5Jianbo Xiong6Zhigang Jie7Department of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaThe Second Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaDepartment of Gastrointestinal Surgery, The First Affiliated Hospital of Nanchang University, Nanchang, ChinaColon cancer (CC) is one of the most frequent malignancies in the world, with a high rate of morbidity and death. In CC, necroptosis and long noncoding RNA (lncRNAs) are crucial, but the mechanism is not completely clear. The goal of this study was to create a new signature that might predict patient survival and tumor immunity in patients with CC. Expression profiles of necroptosis-related lncRNAs in 473 patients with CC were retrieved from the TCGA database. A consensus clustering analysis based on differentially expressed (DE) genes and a prognostic model based on least absolute shrinkage and selection operator (LASSO) regression analysis were conducted. Clinicopathological correlation analysis, expression difference analysis, PCA, TMB, GO analysis, KEGG enrichment analysis, survival analysis, immune correlation analysis, prediction of clinical therapeutic compounds, and qRT–PCR were also conducted. Fifty-six necroptosis-related lncRNAs were found to be linked to the prognosis, and consensus clustering analysis was performed. There were substantial variations in survival, immune checkpoint expression, clinicopathological correlations, and tumor immunity among the different subgroups. Six lncRNAs were discovered, and patients were split into high-risk and low-risk groups based on a risk score generated using these six lncRNAs. The survival time of low-risk patients was considerably longer than that of high-risk patients, indicating that these lncRNAs are directly associated with survival. The risk score was associated with the tumor stage, infiltration depth, lymph node metastasis, and distant metastasis. After univariate and multivariate Cox regression analysis, the risk score and tumor stage remained significant. Cancer- and metabolism-related pathways were enriched by KEGG analyses. Immune infiltration was shown to differ significantly between high- and low-risk patients in a tumor immunoassay. Eight compounds were screened out, and qRT–PCR confirmed the differential expression of the six lncRNAs. Overall, in CC, necroptosis-related lncRNAs have an important function, and the prognosis of patients with CC can be predicted by these six necroptosis-related lncRNAs. They may be useful in the future for customized cancer therapy.https://www.frontiersin.org/articles/10.3389/fmolb.2022.811269/fullnecroptosislncRNAcolon cancerprognostic modelbioinformatics |
| spellingShingle | Li Liu Liu Huang Wenzheng Chen Guoyang Zhang Yebei Li Yukang Wu Jianbo Xiong Zhigang Jie Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer Frontiers in Molecular Biosciences necroptosis lncRNA colon cancer prognostic model bioinformatics |
| title | Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer |
| title_full | Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer |
| title_fullStr | Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer |
| title_full_unstemmed | Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer |
| title_short | Comprehensive Analysis of Necroptosis-Related Long Noncoding RNA Immune Infiltration and Prediction of Prognosis in Patients With Colon Cancer |
| title_sort | comprehensive analysis of necroptosis related long noncoding rna immune infiltration and prediction of prognosis in patients with colon cancer |
| topic | necroptosis lncRNA colon cancer prognostic model bioinformatics |
| url | https://www.frontiersin.org/articles/10.3389/fmolb.2022.811269/full |
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