Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma
Introduction: Increasing evidences have shown that hypoxia and the immune microenvironment play vital roles in the development of osteosarcoma. However, reliable gene signatures based on the combination of hypoxia and the immune status for prognostic prediction of osteosarcoma have so far not been i...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-12-01
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| Series: | Frontiers in Cell and Developmental Biology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcell.2022.974851/full |
| _version_ | 1811188185401655296 |
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| author | Wenshuo Zhang Pang Lyu Darja Andreev Yewei Jia Fulin Zhang Aline Bozec |
| author_facet | Wenshuo Zhang Pang Lyu Darja Andreev Yewei Jia Fulin Zhang Aline Bozec |
| author_sort | Wenshuo Zhang |
| collection | DOAJ |
| description | Introduction: Increasing evidences have shown that hypoxia and the immune microenvironment play vital roles in the development of osteosarcoma. However, reliable gene signatures based on the combination of hypoxia and the immune status for prognostic prediction of osteosarcoma have so far not been identified.Methods: The individual hypoxia and immune status of osteosarcoma patients were identified with transcriptomic profiles of a training cohort from the TARGET database using ssGSEA and ESTIMATE algorithms, respectively. Lasso regression and stepwise Cox regression were performed to develop a hypoxia-immune-based gene signature. An independent cohort from the GEO database was used for external validation. Finally, a nomogram was constructed based on the gene signature and clinical features to improve the risk stratification and to quantify the risk assessment for individual patients.Results: Hypoxia and the immune status were significantly associated with the prognosis of osteosarcoma patients. Seven hypoxia- and immune-related genes (BNIP3, SLC38A5, SLC5A3, CKMT2, S100A3, CXCL11 and PGM1) were identified to be involved in our prognostic signature. In the training cohort, the prognostic signature discriminated high-risk patients with osteosarcoma. The hypoxia-immune-based gene signature proved to be a stable and predictive method as determined in different datasets and subgroups of patients. Furthermore, a nomogram based on the prognostic signature was generated to optimize the risk stratification and to quantify the risk assessment. Similar results were validated in an independent GEO cohort, confirming the stability and reliability of the prognostic signature.Conclusion: The hypoxia-immune-based prognostic signature might contribute to the optimization of risk stratification for survival and personalized management of osteosarcoma patients. |
| first_indexed | 2024-04-11T14:16:20Z |
| format | Article |
| id | doaj.art-fbe90a244a8f4b7cb46536e21bc1bcc4 |
| institution | Directory Open Access Journal |
| issn | 2296-634X |
| language | English |
| last_indexed | 2024-04-11T14:16:20Z |
| publishDate | 2022-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cell and Developmental Biology |
| spelling | doaj.art-fbe90a244a8f4b7cb46536e21bc1bcc42022-12-22T04:19:30ZengFrontiers Media S.A.Frontiers in Cell and Developmental Biology2296-634X2022-12-011010.3389/fcell.2022.974851974851Hypoxia-immune-related microenvironment prognostic signature for osteosarcomaWenshuo ZhangPang LyuDarja AndreevYewei JiaFulin ZhangAline BozecIntroduction: Increasing evidences have shown that hypoxia and the immune microenvironment play vital roles in the development of osteosarcoma. However, reliable gene signatures based on the combination of hypoxia and the immune status for prognostic prediction of osteosarcoma have so far not been identified.Methods: The individual hypoxia and immune status of osteosarcoma patients were identified with transcriptomic profiles of a training cohort from the TARGET database using ssGSEA and ESTIMATE algorithms, respectively. Lasso regression and stepwise Cox regression were performed to develop a hypoxia-immune-based gene signature. An independent cohort from the GEO database was used for external validation. Finally, a nomogram was constructed based on the gene signature and clinical features to improve the risk stratification and to quantify the risk assessment for individual patients.Results: Hypoxia and the immune status were significantly associated with the prognosis of osteosarcoma patients. Seven hypoxia- and immune-related genes (BNIP3, SLC38A5, SLC5A3, CKMT2, S100A3, CXCL11 and PGM1) were identified to be involved in our prognostic signature. In the training cohort, the prognostic signature discriminated high-risk patients with osteosarcoma. The hypoxia-immune-based gene signature proved to be a stable and predictive method as determined in different datasets and subgroups of patients. Furthermore, a nomogram based on the prognostic signature was generated to optimize the risk stratification and to quantify the risk assessment. Similar results were validated in an independent GEO cohort, confirming the stability and reliability of the prognostic signature.Conclusion: The hypoxia-immune-based prognostic signature might contribute to the optimization of risk stratification for survival and personalized management of osteosarcoma patients.https://www.frontiersin.org/articles/10.3389/fcell.2022.974851/fullosteosarcomahypoxiaimmune statusprognosisbioinformatic analysis |
| spellingShingle | Wenshuo Zhang Pang Lyu Darja Andreev Yewei Jia Fulin Zhang Aline Bozec Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma Frontiers in Cell and Developmental Biology osteosarcoma hypoxia immune status prognosis bioinformatic analysis |
| title | Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma |
| title_full | Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma |
| title_fullStr | Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma |
| title_full_unstemmed | Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma |
| title_short | Hypoxia-immune-related microenvironment prognostic signature for osteosarcoma |
| title_sort | hypoxia immune related microenvironment prognostic signature for osteosarcoma |
| topic | osteosarcoma hypoxia immune status prognosis bioinformatic analysis |
| url | https://www.frontiersin.org/articles/10.3389/fcell.2022.974851/full |
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