A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma
Abstract Background It is of great concern to identify prognostic signatures for the prediction and prediction of esophageal squamous cell carcinoma (ESCC), which is the lethal pathological type of malignancy. Method Bulk RNA sequencing and scRNA-seq data were retrieved from GSE53624, GSE53622, and...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Springer
2023-06-01
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| Series: | Discover Oncology |
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| Online Access: | https://doi.org/10.1007/s12672-023-00711-5 |
| _version_ | 1797801403733770240 |
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| author | Fuxing Liu Donglan Yuan Xia Liu Shichao Zhuo Xinyun Liu Haihui Sheng Min Sha Jun Ye Hong Yu |
| author_facet | Fuxing Liu Donglan Yuan Xia Liu Shichao Zhuo Xinyun Liu Haihui Sheng Min Sha Jun Ye Hong Yu |
| author_sort | Fuxing Liu |
| collection | DOAJ |
| description | Abstract Background It is of great concern to identify prognostic signatures for the prediction and prediction of esophageal squamous cell carcinoma (ESCC), which is the lethal pathological type of malignancy. Method Bulk RNA sequencing and scRNA-seq data were retrieved from GSE53624, GSE53622, and GSE188900. Disulfidptosis-related differentially expressed genes (DEGs) were identified between disulfidptosis-high score and disulfidptosis-low score groups. Functional annotation of DEGs were analyzed by Gene Ontology (GO). Consistent clustering and co-expression modules were analyzed, and then constructed a risk score model via multivariate Cox regression analysis. Immune infiltration and immunotherapy response analyses were conducted based on risk score. qRT-PCR, colony formation assay, and flow cytometry analysis were conducted in KYSE-150 and TE-1 cell lines. Results Seven genes (CD96, CXCL13, IL2RG, LY96, TPK1, ACAP1, and SOX17) were selected as marker genes. CD96 and SOX17 are independent prognostic signatures for ESCC patients, with a significant correlation with infiltrated immune cells. ESCC patients had worse response to nivolumab in the high-risk group. Through cellular experiments, we found that CD96 expression was associated with apoptosis and cell cycle ESCC cells. Conclusion In a word, the risk score based on disulfidptosis is associated with prognosis and the immune microenvironment, which may direct immunotherapy of ESCC. The key gene of risk score, namely CD96, plays a role in proliferation and apoptosis in ESCC. We offer an insight into the exploration of the genomic etiology of ESCC for its clinical management. |
| first_indexed | 2024-03-13T04:49:57Z |
| format | Article |
| id | doaj.art-e161928976fc4c0ab0b50266e3dc886d |
| institution | Directory Open Access Journal |
| issn | 2730-6011 |
| language | English |
| last_indexed | 2024-03-13T04:49:57Z |
| publishDate | 2023-06-01 |
| publisher | Springer |
| record_format | Article |
| series | Discover Oncology |
| spelling | doaj.art-e161928976fc4c0ab0b50266e3dc886d2023-06-18T11:17:40ZengSpringerDiscover Oncology2730-60112023-06-0114111810.1007/s12672-023-00711-5A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinomaFuxing Liu0Donglan Yuan1Xia Liu2Shichao Zhuo3Xinyun Liu4Haihui Sheng5Min Sha6Jun Ye7Hong Yu8Department of Pathology, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityDepartment of Gynecology, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityDepartment of Pathology, Xuzhou Central Hospital Affiliated to Nanjing University of Chinese MedicineDepartment of Pathology, Xuzhou Central Hospital Affiliated to Nanjing University of Chinese MedicineDepartment of Pathology, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityDepartment of Pathology, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityTranslational Medicine Center, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityTranslational Medicine Center, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityDepartment of Pathology, The Affiliated Taizhou People’s Hospital of Nanjing Medical UniversityAbstract Background It is of great concern to identify prognostic signatures for the prediction and prediction of esophageal squamous cell carcinoma (ESCC), which is the lethal pathological type of malignancy. Method Bulk RNA sequencing and scRNA-seq data were retrieved from GSE53624, GSE53622, and GSE188900. Disulfidptosis-related differentially expressed genes (DEGs) were identified between disulfidptosis-high score and disulfidptosis-low score groups. Functional annotation of DEGs were analyzed by Gene Ontology (GO). Consistent clustering and co-expression modules were analyzed, and then constructed a risk score model via multivariate Cox regression analysis. Immune infiltration and immunotherapy response analyses were conducted based on risk score. qRT-PCR, colony formation assay, and flow cytometry analysis were conducted in KYSE-150 and TE-1 cell lines. Results Seven genes (CD96, CXCL13, IL2RG, LY96, TPK1, ACAP1, and SOX17) were selected as marker genes. CD96 and SOX17 are independent prognostic signatures for ESCC patients, with a significant correlation with infiltrated immune cells. ESCC patients had worse response to nivolumab in the high-risk group. Through cellular experiments, we found that CD96 expression was associated with apoptosis and cell cycle ESCC cells. Conclusion In a word, the risk score based on disulfidptosis is associated with prognosis and the immune microenvironment, which may direct immunotherapy of ESCC. The key gene of risk score, namely CD96, plays a role in proliferation and apoptosis in ESCC. We offer an insight into the exploration of the genomic etiology of ESCC for its clinical management.https://doi.org/10.1007/s12672-023-00711-5DisulfidptosisEsophageal squamous cell carcinomaRisk scoreTumor microenvironmentCD96 |
| spellingShingle | Fuxing Liu Donglan Yuan Xia Liu Shichao Zhuo Xinyun Liu Haihui Sheng Min Sha Jun Ye Hong Yu A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma Discover Oncology Disulfidptosis Esophageal squamous cell carcinoma Risk score Tumor microenvironment CD96 |
| title | A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| title_full | A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| title_fullStr | A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| title_full_unstemmed | A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| title_short | A demonstration based on multi-omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| title_sort | demonstration based on multi omics transcriptome sequencing data revealed disulfidptosis heterogeneity within the tumor microenvironment of esophageal squamous cell carcinoma |
| topic | Disulfidptosis Esophageal squamous cell carcinoma Risk score Tumor microenvironment CD96 |
| url | https://doi.org/10.1007/s12672-023-00711-5 |
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