Identification and validation of a 17-gene signature to improve the survival prediction of gliomas
Gliomas are one of the most frequent types of nervous system tumours and have significant morbidity and mortality rates. As a result, it is critical to fully comprehend the molecular mechanism of glioma to predict prognosis and target gene therapy. The goal of this research was to discover the hub g...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-09-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2022.1000396/full |
| _version_ | 1811264504616452096 |
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| author | Shiao Tong Minqi Xia Yang Xu Qian Sun Liguo Ye Jiayang Cai Zhang Ye Daofeng Tian |
| author_facet | Shiao Tong Minqi Xia Yang Xu Qian Sun Liguo Ye Jiayang Cai Zhang Ye Daofeng Tian |
| author_sort | Shiao Tong |
| collection | DOAJ |
| description | Gliomas are one of the most frequent types of nervous system tumours and have significant morbidity and mortality rates. As a result, it is critical to fully comprehend the molecular mechanism of glioma to predict prognosis and target gene therapy. The goal of this research was to discover the hub genes of glioma and investigate their prognostic and diagnostic usefulness. In this study, we collected mRNA expression profiles and clinical information from glioma patients in the TCGA, GTEx, GSE68848, and GSE4920 databases. WGCNA and differential expression analysis identified 170 DEGs in the collected datasets. GO and KEGG pathway analyses revealed that DEGs were mainly enriched in gliogenesis and extracellular matrix. LASSO was performed to construct prognostic signatures in the TCGA cohort, and 17 genes were used to build risk models and were validated in the CGGA database. The ROC curve confirmed the accuracy of the prognostic signature. Univariate and multivariate Cox regression analyses showed that all independent risk factors for glioma except gender. Next, we performed ssGSEA to demonstrate a high correlation between risk score and immunity. Subsequently, 7 hub genes were identified by the PPI network and found to have great drug targeting potential. Finally, RPL39, as one of the hub genes, was found to be closely related to the prognosis of glioma patients. Knockdown of RPL39 in vitro significantly inhibited the proliferation and migration of glioma cells, whereas overexpression of RPL39 had the opposite effect. And we found that knockdown of RPL39 inhibited the polarization and infiltration of M2 phenotype macrophages. In conclusion, our new prognosis-related model provides more potential therapeutic strategies for glioma patients. |
| first_indexed | 2024-04-12T20:04:27Z |
| format | Article |
| id | doaj.art-418b8156166e4ca68f2372634a1d4bb5 |
| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-04-12T20:04:27Z |
| publishDate | 2022-09-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj.art-418b8156166e4ca68f2372634a1d4bb52022-12-22T03:18:25ZengFrontiers Media S.A.Frontiers in Immunology1664-32242022-09-011310.3389/fimmu.2022.10003961000396Identification and validation of a 17-gene signature to improve the survival prediction of gliomasShiao Tong0Minqi Xia1Yang Xu2Qian Sun3Liguo Ye4Jiayang Cai5Zhang Ye6Daofeng Tian7Department of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Endocrinology & Metabolism, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaDepartment of Neurosurgery, Renmin Hospital of Wuhan University, Wuhan, ChinaGliomas are one of the most frequent types of nervous system tumours and have significant morbidity and mortality rates. As a result, it is critical to fully comprehend the molecular mechanism of glioma to predict prognosis and target gene therapy. The goal of this research was to discover the hub genes of glioma and investigate their prognostic and diagnostic usefulness. In this study, we collected mRNA expression profiles and clinical information from glioma patients in the TCGA, GTEx, GSE68848, and GSE4920 databases. WGCNA and differential expression analysis identified 170 DEGs in the collected datasets. GO and KEGG pathway analyses revealed that DEGs were mainly enriched in gliogenesis and extracellular matrix. LASSO was performed to construct prognostic signatures in the TCGA cohort, and 17 genes were used to build risk models and were validated in the CGGA database. The ROC curve confirmed the accuracy of the prognostic signature. Univariate and multivariate Cox regression analyses showed that all independent risk factors for glioma except gender. Next, we performed ssGSEA to demonstrate a high correlation between risk score and immunity. Subsequently, 7 hub genes were identified by the PPI network and found to have great drug targeting potential. Finally, RPL39, as one of the hub genes, was found to be closely related to the prognosis of glioma patients. Knockdown of RPL39 in vitro significantly inhibited the proliferation and migration of glioma cells, whereas overexpression of RPL39 had the opposite effect. And we found that knockdown of RPL39 inhibited the polarization and infiltration of M2 phenotype macrophages. In conclusion, our new prognosis-related model provides more potential therapeutic strategies for glioma patients.https://www.frontiersin.org/articles/10.3389/fimmu.2022.1000396/fullgliomaprognosisgene signaturerick scoreimmunity |
| spellingShingle | Shiao Tong Minqi Xia Yang Xu Qian Sun Liguo Ye Jiayang Cai Zhang Ye Daofeng Tian Identification and validation of a 17-gene signature to improve the survival prediction of gliomas Frontiers in Immunology glioma prognosis gene signature rick score immunity |
| title | Identification and validation of a 17-gene signature to improve the survival prediction of gliomas |
| title_full | Identification and validation of a 17-gene signature to improve the survival prediction of gliomas |
| title_fullStr | Identification and validation of a 17-gene signature to improve the survival prediction of gliomas |
| title_full_unstemmed | Identification and validation of a 17-gene signature to improve the survival prediction of gliomas |
| title_short | Identification and validation of a 17-gene signature to improve the survival prediction of gliomas |
| title_sort | identification and validation of a 17 gene signature to improve the survival prediction of gliomas |
| topic | glioma prognosis gene signature rick score immunity |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2022.1000396/full |
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