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The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration

N7-methyladenosine (m(7)G) modifications have been the subject of growing research interest with respect to their relationship with the progression and treatment of various cancers. This analysis was designed to examine the association between m(7)G-related gene expression and colorectal cancer (CRC...

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Autores principales: Huang, Xinkun, Zhu, Bin, Qian, Chenyu, Feng, Ying
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9732290/
https://www.ncbi.nlm.nih.gov/pubmed/36482181
http://dx.doi.org/10.1038/s41598-022-25823-w
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author Huang, Xinkun
Zhu, Bin
Qian, Chenyu
Feng, Ying
author_facet Huang, Xinkun
Zhu, Bin
Qian, Chenyu
Feng, Ying
author_sort Huang, Xinkun
collection PubMed
description N7-methyladenosine (m(7)G) modifications have been the subject of growing research interest with respect to their relationship with the progression and treatment of various cancers. This analysis was designed to examine the association between m(7)G-related gene expression and colorectal cancer (CRC) patient outcomes. Initial training analyses were performed using the TCGA dataset, with the GSE28722 dataset then being used to validate these results. Univariate Cox analyses were initially conducted to screen out prognostic m(7)G-related genes, after which a LASSO approach was used to construct an m(7)G risk score (MRS) model. Kaplan–Meier curves, ROC curves, and Cox analyses were subsequently used to validate the prognostic utility of this model in CRC patients. The R maftools package was further employed to assess mutational characteristics in CRC patients in different MRS subgroups, while the ESTIMATE, CIBERSORT, and ssGSEA tools were used to conduct immune infiltration analyses. A WGCNA was then performed to identify key immune-associated hub genes. The EIF4E3, GEMIN5, and NCBP2 genes were used to establish the MRS model. Patients with high MRS scores exhibited worse overall survival than patients with low scores. In Cox analyses, MRS scores were independently associated with CRC patient prognosis. Patients with low MRS scores exhibited a higher tumor mutational burden and higher levels of microsatellite instability. In immune infiltration analyses, higher immune checkpoint expression and greater immune cell infiltration were also observed in patients with low MRS scores. WGCNA analyses further identified 25 CD8+ T cell infiltration-associated genes. These findings suggest that MRS values represent a useful biomarker capable of differentiating among CRC patients with different immunological features and prognostic outcomes, offering an opportunity to better determine which patients are likely to benefit from immune checkpoint inhibitor treatment.
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spelling pubmed-97322902022-12-10 The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration Huang, Xinkun Zhu, Bin Qian, Chenyu Feng, Ying Sci Rep Article N7-methyladenosine (m(7)G) modifications have been the subject of growing research interest with respect to their relationship with the progression and treatment of various cancers. This analysis was designed to examine the association between m(7)G-related gene expression and colorectal cancer (CRC) patient outcomes. Initial training analyses were performed using the TCGA dataset, with the GSE28722 dataset then being used to validate these results. Univariate Cox analyses were initially conducted to screen out prognostic m(7)G-related genes, after which a LASSO approach was used to construct an m(7)G risk score (MRS) model. Kaplan–Meier curves, ROC curves, and Cox analyses were subsequently used to validate the prognostic utility of this model in CRC patients. The R maftools package was further employed to assess mutational characteristics in CRC patients in different MRS subgroups, while the ESTIMATE, CIBERSORT, and ssGSEA tools were used to conduct immune infiltration analyses. A WGCNA was then performed to identify key immune-associated hub genes. The EIF4E3, GEMIN5, and NCBP2 genes were used to establish the MRS model. Patients with high MRS scores exhibited worse overall survival than patients with low scores. In Cox analyses, MRS scores were independently associated with CRC patient prognosis. Patients with low MRS scores exhibited a higher tumor mutational burden and higher levels of microsatellite instability. In immune infiltration analyses, higher immune checkpoint expression and greater immune cell infiltration were also observed in patients with low MRS scores. WGCNA analyses further identified 25 CD8+ T cell infiltration-associated genes. These findings suggest that MRS values represent a useful biomarker capable of differentiating among CRC patients with different immunological features and prognostic outcomes, offering an opportunity to better determine which patients are likely to benefit from immune checkpoint inhibitor treatment. Nature Publishing Group UK 2022-12-08 /pmc/articles/PMC9732290/ /pubmed/36482181 http://dx.doi.org/10.1038/s41598-022-25823-w Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Huang, Xinkun
Zhu, Bin
Qian, Chenyu
Feng, Ying
The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title_full The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title_fullStr The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title_full_unstemmed The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title_short The prognostic index of m(7)G-related genes in CRC correlates with immune infiltration
title_sort prognostic index of m(7)g-related genes in crc correlates with immune infiltration
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9732290/
https://www.ncbi.nlm.nih.gov/pubmed/36482181
http://dx.doi.org/10.1038/s41598-022-25823-w
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