Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma
Background: Immunogenic cell death (ICD) is related to cancer prognosis, which has a synergic effect in combination with chemotherapy or immunotherapy. Yet, the relationship between ICD and osteosarcoma remained unclear. Materials and methods: Three osteosarcoma datasets including therapeutically ap...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2024-03-01
|
| Series: | Heliyon |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2405844024036612 |
| _version_ | 1797224214254583808 |
|---|---|
| author | Shuai Han Qinghe Wang Mingquan Shen Xingpeng Zhang Jian Wang |
| author_facet | Shuai Han Qinghe Wang Mingquan Shen Xingpeng Zhang Jian Wang |
| author_sort | Shuai Han |
| collection | DOAJ |
| description | Background: Immunogenic cell death (ICD) is related to cancer prognosis, which has a synergic effect in combination with chemotherapy or immunotherapy. Yet, the relationship between ICD and osteosarcoma remained unclear. Materials and methods: Three osteosarcoma datasets including therapeutically applicable research to generate effective treatments (TARGET), GSE126209 and GSE21257 datasets were included. A protein-protein interaction network was constructed based on ICD-related genes. We performed unsupervised consensus clustering to classify molecular subtypes (clusters). Survival analysis, Estimation of stromal and immune cells in malignant tumour tissues using expression data (ESTIMATE), Cell-type identification by estimating relative subsets of RNA transcripts (CIBERSORT), and differential analysis were employed to characterize the molecular differences between different clusters. Univariate Cox regression analysis was conducted to confirm prognostic genes. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) was used to demonstrate the aberrant expression of ICD-correlated signature genes in osteosarcoma. A series of cellular experiments, including cell counting kit-8 (CCK-8), transwell, and flow cytometry, were used to demonstrate the regulatory role of key genes in the ICD model on the malignant phenotype of osteosarcoma. Results: Three clusters (cluster1, 2, 3) were constructed and they showed distinct overall survival and immune infiltration. ICD-related genes were highly expressed in cluster1. Moreover, Cluster1 had the best prognosis, high immune score and high expression of human leukocyte antigen (HLA)-related genes. TLR4, LY96, IFNGR1, CD4, and CASP1 were identified as prognostic genes for establishing an ICD-related risk signature. According to the risk signature, two risk groups (high and low risks) showing differential prognosis and response to immunotherapy. The low risks group had a better prognosis but was not sensitive to immunotherapy. Molecular assays verified that prognostic genes were abnormally under-expressed in osteosarcoma. Cellular assays demonstrated that LY96, the most significantly down-regulated gene in osteosarcoma, inhibited the migration, invasion, and proliferation phenotypes of osteosarcoma cells and prolonged the cell cycle. Analysis of oxidative stress related pathway enrichment in tumor microenvironment was conducted by single-sample gene set enrichment analysis (ssGSEA). Conclusions: This study demonstrated the prognostic significance of ICD-correlated genes in osteosarcoma patients. The five-gene risk signature facilitate prognostic evaluation and prediction of osteosarcoma patients’ response to immunotherapy. The risk signature also offered a possibility for the exploit of novel ICD-related treatment. |
| first_indexed | 2024-04-24T13:49:33Z |
| format | Article |
| id | doaj.art-a441e87f4d1d44859f6437a333334f0f |
| institution | Directory Open Access Journal |
| issn | 2405-8440 |
| language | English |
| last_indexed | 2024-04-24T13:49:33Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Heliyon |
| spelling | doaj.art-a441e87f4d1d44859f6437a333334f0f2024-04-04T05:05:19ZengElsevierHeliyon2405-84402024-03-01106e27630Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcomaShuai Han0Qinghe Wang1Mingquan Shen2Xingpeng Zhang3Jian Wang4Department of Orthopedics, Shanghai Pudong New Area People's Hospital, Shanghai, 201299, ChinaDepartment of Orthopedics, Shanghai Pudong New Area People's Hospital, Shanghai, 201299, ChinaDepartment of Orthopedics, Shanghai Pudong New Area People's Hospital, Shanghai, 201299, ChinaDepartment of Orthopedics, Shanghai Pudong New Area People's Hospital, Shanghai, 201299, ChinaCorresponding author. Department of Orthopedics, Shanghai Pudong New Area People's Hospital, China.; Department of Orthopedics, Shanghai Pudong New Area People's Hospital, Shanghai, 201299, ChinaBackground: Immunogenic cell death (ICD) is related to cancer prognosis, which has a synergic effect in combination with chemotherapy or immunotherapy. Yet, the relationship between ICD and osteosarcoma remained unclear. Materials and methods: Three osteosarcoma datasets including therapeutically applicable research to generate effective treatments (TARGET), GSE126209 and GSE21257 datasets were included. A protein-protein interaction network was constructed based on ICD-related genes. We performed unsupervised consensus clustering to classify molecular subtypes (clusters). Survival analysis, Estimation of stromal and immune cells in malignant tumour tissues using expression data (ESTIMATE), Cell-type identification by estimating relative subsets of RNA transcripts (CIBERSORT), and differential analysis were employed to characterize the molecular differences between different clusters. Univariate Cox regression analysis was conducted to confirm prognostic genes. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) was used to demonstrate the aberrant expression of ICD-correlated signature genes in osteosarcoma. A series of cellular experiments, including cell counting kit-8 (CCK-8), transwell, and flow cytometry, were used to demonstrate the regulatory role of key genes in the ICD model on the malignant phenotype of osteosarcoma. Results: Three clusters (cluster1, 2, 3) were constructed and they showed distinct overall survival and immune infiltration. ICD-related genes were highly expressed in cluster1. Moreover, Cluster1 had the best prognosis, high immune score and high expression of human leukocyte antigen (HLA)-related genes. TLR4, LY96, IFNGR1, CD4, and CASP1 were identified as prognostic genes for establishing an ICD-related risk signature. According to the risk signature, two risk groups (high and low risks) showing differential prognosis and response to immunotherapy. The low risks group had a better prognosis but was not sensitive to immunotherapy. Molecular assays verified that prognostic genes were abnormally under-expressed in osteosarcoma. Cellular assays demonstrated that LY96, the most significantly down-regulated gene in osteosarcoma, inhibited the migration, invasion, and proliferation phenotypes of osteosarcoma cells and prolonged the cell cycle. Analysis of oxidative stress related pathway enrichment in tumor microenvironment was conducted by single-sample gene set enrichment analysis (ssGSEA). Conclusions: This study demonstrated the prognostic significance of ICD-correlated genes in osteosarcoma patients. The five-gene risk signature facilitate prognostic evaluation and prediction of osteosarcoma patients’ response to immunotherapy. The risk signature also offered a possibility for the exploit of novel ICD-related treatment.http://www.sciencedirect.com/science/article/pii/S2405844024036612OsteosarcomaOxidative stressImmunogenic cell deathTumor microenvironmentRisk signature |
| spellingShingle | Shuai Han Qinghe Wang Mingquan Shen Xingpeng Zhang Jian Wang Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma Heliyon Osteosarcoma Oxidative stress Immunogenic cell death Tumor microenvironment Risk signature |
| title | Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma |
| title_full | Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma |
| title_fullStr | Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma |
| title_full_unstemmed | Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma |
| title_short | Immunogenic cell death related mRNAs associated signature to predict immunotherapeutic response in osteosarcoma |
| title_sort | immunogenic cell death related mrnas associated signature to predict immunotherapeutic response in osteosarcoma |
| topic | Osteosarcoma Oxidative stress Immunogenic cell death Tumor microenvironment Risk signature |
| url | http://www.sciencedirect.com/science/article/pii/S2405844024036612 |
| work_keys_str_mv | AT shuaihan immunogeniccelldeathrelatedmrnasassociatedsignaturetopredictimmunotherapeuticresponseinosteosarcoma AT qinghewang immunogeniccelldeathrelatedmrnasassociatedsignaturetopredictimmunotherapeuticresponseinosteosarcoma AT mingquanshen immunogeniccelldeathrelatedmrnasassociatedsignaturetopredictimmunotherapeuticresponseinosteosarcoma AT xingpengzhang immunogeniccelldeathrelatedmrnasassociatedsignaturetopredictimmunotherapeuticresponseinosteosarcoma AT jianwang immunogeniccelldeathrelatedmrnasassociatedsignaturetopredictimmunotherapeuticresponseinosteosarcoma |