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Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma

5-methylcytosine (m5C) modification is involved in tumor progression. However, the lncRNAs associated with m5C in lung squamous cell carcinoma (LUSC) have not been elucidated. The Cancer Genome Atlas database was used to get the open-accessed transcriptional profiling and clinical information of LUS...

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Autores principales: Xu, Ruoxin, Zhang, Wenxiong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9355133/
https://www.ncbi.nlm.nih.gov/pubmed/35938020
http://dx.doi.org/10.3389/fgene.2022.960229
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author Xu, Ruoxin
Zhang, Wenxiong
author_facet Xu, Ruoxin
Zhang, Wenxiong
author_sort Xu, Ruoxin
collection PubMed
description 5-methylcytosine (m5C) modification is involved in tumor progression. However, the lncRNAs associated with m5C in lung squamous cell carcinoma (LUSC) have not been elucidated. The Cancer Genome Atlas database was used to get the open-accessed transcriptional profiling and clinical information of LUSC patients. All the statistical analyses were performed based on R software v 4.0.0 and SPSS13.0. First, there were 614 m5C-related lncRNAs identified under the criterion of |R|>0.4 and p < 0.001 with m5C genes. Next, a prognosis model based on ERICD, AL021068.1, LINC01341, AC254562.3, and AP002360.1 was established, which showed good prediction efficiency in both the training and validation cohorts. Next, a nomogram plot was established by combining the risk score and clinical features for a better application in clinical settings. Pathway enrichment analysis showed that the pathways of angiogenesis, TGF-β signaling, IL6-JAK-STAT3 signaling, protein secretion, androgen response, interferon-α response, and unfolded protein response were significantly enriched in the high-risk patients. Immune infiltration analysis showed that the risk score was positively correlated with neutrophils, resting CD4+ memory T cells, and M2 macrophages, yet negatively correlated with follicular helper T cells, CD8+ T cells, and activated NK cells. Moreover, we found that high-risk patients might be more sensitive to immunotherapy, imatinib, yet resistant to erlotinib, gefitinib, and vinorelbine. In summary, our prognosis model is an effective tool that could robustly predict LUSC patient prognosis, which had the potential for clinical guidance.
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spelling pubmed-93551332022-08-06 Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma Xu, Ruoxin Zhang, Wenxiong Front Genet Genetics 5-methylcytosine (m5C) modification is involved in tumor progression. However, the lncRNAs associated with m5C in lung squamous cell carcinoma (LUSC) have not been elucidated. The Cancer Genome Atlas database was used to get the open-accessed transcriptional profiling and clinical information of LUSC patients. All the statistical analyses were performed based on R software v 4.0.0 and SPSS13.0. First, there were 614 m5C-related lncRNAs identified under the criterion of |R|>0.4 and p < 0.001 with m5C genes. Next, a prognosis model based on ERICD, AL021068.1, LINC01341, AC254562.3, and AP002360.1 was established, which showed good prediction efficiency in both the training and validation cohorts. Next, a nomogram plot was established by combining the risk score and clinical features for a better application in clinical settings. Pathway enrichment analysis showed that the pathways of angiogenesis, TGF-β signaling, IL6-JAK-STAT3 signaling, protein secretion, androgen response, interferon-α response, and unfolded protein response were significantly enriched in the high-risk patients. Immune infiltration analysis showed that the risk score was positively correlated with neutrophils, resting CD4+ memory T cells, and M2 macrophages, yet negatively correlated with follicular helper T cells, CD8+ T cells, and activated NK cells. Moreover, we found that high-risk patients might be more sensitive to immunotherapy, imatinib, yet resistant to erlotinib, gefitinib, and vinorelbine. In summary, our prognosis model is an effective tool that could robustly predict LUSC patient prognosis, which had the potential for clinical guidance. Frontiers Media S.A. 2022-07-22 /pmc/articles/PMC9355133/ /pubmed/35938020 http://dx.doi.org/10.3389/fgene.2022.960229 Text en Copyright © 2022 Xu and Zhang. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Xu, Ruoxin
Zhang, Wenxiong
Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title_full Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title_fullStr Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title_full_unstemmed Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title_short Prognostic Value and Immune Landscapes of m5C-Related lncRNAs in Lung Squamous Cell Carcinoma
title_sort prognostic value and immune landscapes of m5c-related lncrnas in lung squamous cell carcinoma
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9355133/
https://www.ncbi.nlm.nih.gov/pubmed/35938020
http://dx.doi.org/10.3389/fgene.2022.960229
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