Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity
Abstract Osteosarcoma is one of the most common malignant bone tumours in children. In this study, we aimed to construct a cuproptosis-related lncRNAs signature to predict the prognosis and immune landscape of osteosarcoma patients. Databases from TARGET were used to acquire osteosarcoma patient dat...
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Nature Portfolio
2025-01-01
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| Series: | Scientific Reports |
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| Online Access: | https://doi.org/10.1038/s41598-024-84024-9 |
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| author | Ziwei Gao Siqi Chen Wei Ye |
| author_facet | Ziwei Gao Siqi Chen Wei Ye |
| author_sort | Ziwei Gao |
| collection | DOAJ |
| description | Abstract Osteosarcoma is one of the most common malignant bone tumours in children. In this study, we aimed to construct a cuproptosis-related lncRNAs signature to predict the prognosis and immune landscape of osteosarcoma patients. Databases from TARGET were used to acquire osteosarcoma patient datasets, which included clinical information and RNA sequencing data. Cuproptosis-related lncRNAs was obtained by correlation analysis. Through univariate Cox regression analysis, prognosis-related lncRNAs were obtained. We used nonnegative matrix factorization clustering to identify potential molecular subgroups with different cuproptosis-related lncRNA expression patterns. The least absolute shrinkage and selection operator algorithm and multivariate Cox regression analysis were used to construct the prognostic signature. The ESTIMATE algorithm, Gene Ontology and Kyoto Encyclopaedia of Genes and Genomes were applied to explore the underlying mechanisms in the immune landscape of osteosarcoma. We used gene set enrichment analysis to compare the different enrichments in the high-risk group and the low-risk group. Furthermore, we predicted the response to targeted drugs in patients with different risk groups. Using multivariable analysis, we developed a risk scoring model based on 7 long noncoding RNAs and calculated two molecular subgroups from osteosarcoma patients from the database. There is a better immune microenvironment in the low-risk group compared to the high-risk group. At the same time, the gene functional enrichment analysis based on the differently expressed genes obtained by grouping showed they were mainly related to immunity, indicating that cuproptosis-related lncRNAs may affect the prognosis of osteosarcoma by regulating immunity. Moreover, these patients in high-risk group were more susceptible to targeted drugs than the low-risk group. We identified a cuproptosis-related lncRNA prognostic signature for osteosarcoma and showed a close connection in terms of immunity. Moreover, we provided some potential targeted drugs for the treatment of osteosarcoma. |
| format | Article |
| id | doaj-art-c78519c4ddf9499598df610214430204 |
| institution | Kabale University |
| issn | 2045-2322 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Nature Portfolio |
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| series | Scientific Reports |
| spelling | doaj-art-c78519c4ddf9499598df6102144302042025-01-05T12:16:36ZengNature PortfolioScientific Reports2045-23222025-01-0115111610.1038/s41598-024-84024-9Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunityZiwei Gao0Siqi Chen1Wei Ye2Hangzhou TCM Hospital of Zhejiang Chinese Medical University (Hangzhou Hospital of Traditional Chinese Medicine)Hangzhou TCM Hospital of Zhejiang Chinese Medical University (Hangzhou Hospital of Traditional Chinese Medicine)Department of Gastroenterology, Hangzhou TCM Hospital of Zhejiang Chinese Medical University (Hangzhou Hospital of Traditional Chinese Medicine)Abstract Osteosarcoma is one of the most common malignant bone tumours in children. In this study, we aimed to construct a cuproptosis-related lncRNAs signature to predict the prognosis and immune landscape of osteosarcoma patients. Databases from TARGET were used to acquire osteosarcoma patient datasets, which included clinical information and RNA sequencing data. Cuproptosis-related lncRNAs was obtained by correlation analysis. Through univariate Cox regression analysis, prognosis-related lncRNAs were obtained. We used nonnegative matrix factorization clustering to identify potential molecular subgroups with different cuproptosis-related lncRNA expression patterns. The least absolute shrinkage and selection operator algorithm and multivariate Cox regression analysis were used to construct the prognostic signature. The ESTIMATE algorithm, Gene Ontology and Kyoto Encyclopaedia of Genes and Genomes were applied to explore the underlying mechanisms in the immune landscape of osteosarcoma. We used gene set enrichment analysis to compare the different enrichments in the high-risk group and the low-risk group. Furthermore, we predicted the response to targeted drugs in patients with different risk groups. Using multivariable analysis, we developed a risk scoring model based on 7 long noncoding RNAs and calculated two molecular subgroups from osteosarcoma patients from the database. There is a better immune microenvironment in the low-risk group compared to the high-risk group. At the same time, the gene functional enrichment analysis based on the differently expressed genes obtained by grouping showed they were mainly related to immunity, indicating that cuproptosis-related lncRNAs may affect the prognosis of osteosarcoma by regulating immunity. Moreover, these patients in high-risk group were more susceptible to targeted drugs than the low-risk group. We identified a cuproptosis-related lncRNA prognostic signature for osteosarcoma and showed a close connection in terms of immunity. Moreover, we provided some potential targeted drugs for the treatment of osteosarcoma.https://doi.org/10.1038/s41598-024-84024-9CuproptosisOsteosarcomaImmunityLncRNAPrognosis |
| spellingShingle | Ziwei Gao Siqi Chen Wei Ye Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity Scientific Reports Cuproptosis Osteosarcoma Immunity LncRNA Prognosis |
| title | Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| title_full | Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| title_fullStr | Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| title_full_unstemmed | Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| title_short | Cuproptosis related lncRNA signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| title_sort | cuproptosis related lncrna signature as a prognostic and therapeutic biomarker in osteosarcoma immunity |
| topic | Cuproptosis Osteosarcoma Immunity LncRNA Prognosis |
| url | https://doi.org/10.1038/s41598-024-84024-9 |
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