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Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma
BACKGROUND: Ewing’s sarcoma (ES) is one of the most prevalent malignant bone tumors worldwide. However, the molecular mechanisms of the genes and signaling pathways of ES are still not well sufficiently comprehended. To identify candidate genes involved in the development and progression of ES, the...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9997212/ https://www.ncbi.nlm.nih.gov/pubmed/36910645 http://dx.doi.org/10.3389/fonc.2023.1000949 |
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author | Qu, Guoxin Xu, Yuanchun Qu, Ye Qiu, Jinchao Chen, Guosheng Zhao, Nannan Deng, Jin |
author_facet | Qu, Guoxin Xu, Yuanchun Qu, Ye Qiu, Jinchao Chen, Guosheng Zhao, Nannan Deng, Jin |
author_sort | Qu, Guoxin |
collection | PubMed |
description | BACKGROUND: Ewing’s sarcoma (ES) is one of the most prevalent malignant bone tumors worldwide. However, the molecular mechanisms of the genes and signaling pathways of ES are still not well sufficiently comprehended. To identify candidate genes involved in the development and progression of ES, the study screened for key genes and biological pathways related to ES using bioinformatics methods. METHODS: The GSE45544 and GSE17618 microarray datasets were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were identified, and functional enrichment analysis was performed. A protein–protein interaction (PPI) network was built, and key module analysis was performed using STRING and Cytoscape. A core-gene was gained and was validated by the validation dataset GSE67886 and immunohistochemistry (IHC). The diagnostic value and prognosis evaluation of ES were executed using, respectively, the ROC approach and Cox Regression. RESULTS: A total of 187 DEGs, consisting of 56 downregulated genes and 131 upregulated genes, were identified by comparing the tumor samples to normal samples. The enriched functions and pathways of the DEGs, including cell division, mitotic nuclear division, cell proliferation, cell cycle, oocyte meiosis, and progesterone-mediated oocyte maturation, were analyzed. There were 149 nodes and 1246 edges in the PPI network, and 15 hub genes were identified according to the degree levels. The core gene (UBE2T) showed high expression in ES, validated by using GSE67886 and IHC. The ROC analysis revealed UBE2T had outstanding diagnostic value in ES (AUC = 0.75 in the training set, AUC = 0.90 in the validation set). Kaplan-Meier (analysis of survival rate) and Cox Regression analyses indicated that UBE2T was a sign of adverse results for sufferers with ES. CONLUSION: UBE2T was a significant value biomarker for diagnosis and treatment of ES, thereby presenting a novel potential therapeutic target for ES as well as a new perspective for assessing the effect of treatment and prognostic prediction. |
format | Online Article Text |
id | pubmed-9997212 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-99972122023-03-10 Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma Qu, Guoxin Xu, Yuanchun Qu, Ye Qiu, Jinchao Chen, Guosheng Zhao, Nannan Deng, Jin Front Oncol Oncology BACKGROUND: Ewing’s sarcoma (ES) is one of the most prevalent malignant bone tumors worldwide. However, the molecular mechanisms of the genes and signaling pathways of ES are still not well sufficiently comprehended. To identify candidate genes involved in the development and progression of ES, the study screened for key genes and biological pathways related to ES using bioinformatics methods. METHODS: The GSE45544 and GSE17618 microarray datasets were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) were identified, and functional enrichment analysis was performed. A protein–protein interaction (PPI) network was built, and key module analysis was performed using STRING and Cytoscape. A core-gene was gained and was validated by the validation dataset GSE67886 and immunohistochemistry (IHC). The diagnostic value and prognosis evaluation of ES were executed using, respectively, the ROC approach and Cox Regression. RESULTS: A total of 187 DEGs, consisting of 56 downregulated genes and 131 upregulated genes, were identified by comparing the tumor samples to normal samples. The enriched functions and pathways of the DEGs, including cell division, mitotic nuclear division, cell proliferation, cell cycle, oocyte meiosis, and progesterone-mediated oocyte maturation, were analyzed. There were 149 nodes and 1246 edges in the PPI network, and 15 hub genes were identified according to the degree levels. The core gene (UBE2T) showed high expression in ES, validated by using GSE67886 and IHC. The ROC analysis revealed UBE2T had outstanding diagnostic value in ES (AUC = 0.75 in the training set, AUC = 0.90 in the validation set). Kaplan-Meier (analysis of survival rate) and Cox Regression analyses indicated that UBE2T was a sign of adverse results for sufferers with ES. CONLUSION: UBE2T was a significant value biomarker for diagnosis and treatment of ES, thereby presenting a novel potential therapeutic target for ES as well as a new perspective for assessing the effect of treatment and prognostic prediction. Frontiers Media S.A. 2023-02-16 /pmc/articles/PMC9997212/ /pubmed/36910645 http://dx.doi.org/10.3389/fonc.2023.1000949 Text en Copyright © 2023 Qu, Xu, Qu, Qiu, Chen, Zhao and Deng 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 | Oncology Qu, Guoxin Xu, Yuanchun Qu, Ye Qiu, Jinchao Chen, Guosheng Zhao, Nannan Deng, Jin Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title | Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title_full | Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title_fullStr | Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title_full_unstemmed | Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title_short | Identification and validation of a novel ubiquitination-related gene UBE2T in Ewing’s sarcoma |
title_sort | identification and validation of a novel ubiquitination-related gene ube2t in ewing’s sarcoma |
topic | Oncology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9997212/ https://www.ncbi.nlm.nih.gov/pubmed/36910645 http://dx.doi.org/10.3389/fonc.2023.1000949 |
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