Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes
Abstract Background Lung adenocarcinoma (LUAD) is a common cancer with a poor prognosis. Pyroptosis is an important process in the development and progression of LUAD. We analyzed the risk factors affecting the prognosis of patients and constructed a nomogram to predict the overall survival of patie...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2023-12-01
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| Series: | European Journal of Medical Research |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s40001-023-01581-x |
| _version_ | 1797377130976247808 |
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| author | Ziang Wen Bei Pei Longfei Dai Peng Lu Xiangyu Li Chengxin Zhang Shenglin Ge |
| author_facet | Ziang Wen Bei Pei Longfei Dai Peng Lu Xiangyu Li Chengxin Zhang Shenglin Ge |
| author_sort | Ziang Wen |
| collection | DOAJ |
| description | Abstract Background Lung adenocarcinoma (LUAD) is a common cancer with a poor prognosis. Pyroptosis is an important process in the development and progression of LUAD. We analyzed the risk factors affecting the prognosis of patients and constructed a nomogram to predict the overall survival of patients based on different pyroptosis-related genes (PRGs) subtypes. Methods The genomic data of LUAD were downloaded from the TCGA and GEO databases, and all data were filtered and divided into TCGA and GEO cohorts. The process of data analysis and visualization was performed via R software. The data were classified based on different PRGs subtypes using the K-means clustering method. Then, the differentially expressed genes were identified between two different subtypes, and risk factors analysis, survival analysis, functional enrichment analysis, and immune cells infiltration landscape analysis were conducted. The COX regression analysis was used to construct the prediction model. Results Based on the PRGs of LUAD, the patients were divided into two subtypes. We found the survival probability of patients in subtype 1 is higher than that in subtype 2. The results of the logistics analysis showed that gene risk score was closely associated with the prognosis of LUAD patients. The results of GO analysis and KEGG analysis revealed important biological processes and signaling pathways involved in the differentially expressed proteins between the two subtypes. Then we constructed a prediction model of patients’ prognosis based on 13 genes, including IL-1A, P2RX1, GSTM2, ESYT3, ZNF682, KCNF1, STK32A, HHIPL2, GDF10, NDC80, GSTA1, BCL2L10, and CCR2. This model was strongly related to the overall survival (OS) and also reflects the immune status in patients with LUAD. Conclusion In our study, we examined LUAD heterogeneity with reference to pyroptosis and found different prognoses between the two subtypes. And a novel prediction model was constructed to predict the OS of LUAD patients based on different PRGs signatures. The model has shown excellent predictive efficiency through validation. |
| first_indexed | 2024-03-08T19:48:19Z |
| format | Article |
| id | doaj.art-636d3b9fee1142fd8bfca5322c1956e6 |
| institution | Directory Open Access Journal |
| issn | 2047-783X |
| language | English |
| last_indexed | 2024-03-08T19:48:19Z |
| publishDate | 2023-12-01 |
| publisher | BMC |
| record_format | Article |
| series | European Journal of Medical Research |
| spelling | doaj.art-636d3b9fee1142fd8bfca5322c1956e62023-12-24T12:12:49ZengBMCEuropean Journal of Medical Research2047-783X2023-12-0128111010.1186/s40001-023-01581-xRisk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypesZiang Wen0Bei Pei1Longfei Dai2Peng Lu3Xiangyu Li4Chengxin Zhang5Shenglin Ge6Department of Cardiovascular Surgery, The First Affiliated Hospital of Nanjing Medical UniversityThe Graduated School, Anhui University of Traditonal Chinese MedicineThe Graduated School, Anhui Medical UniversityDepartment of Cardiovascular Surgery, The First Affiliated Hospital of Nanjing Medical UniversityDepartment of Cardiovascular Surgery, The First Affiliated Hospital of Nanjing Medical UniversityDepartment of Cardiovascular Surgery, The First Affiliated Hospital of Anhui Medical UniversityDepartment of Cardiovascular Surgery, The First Affiliated Hospital of Anhui Medical UniversityAbstract Background Lung adenocarcinoma (LUAD) is a common cancer with a poor prognosis. Pyroptosis is an important process in the development and progression of LUAD. We analyzed the risk factors affecting the prognosis of patients and constructed a nomogram to predict the overall survival of patients based on different pyroptosis-related genes (PRGs) subtypes. Methods The genomic data of LUAD were downloaded from the TCGA and GEO databases, and all data were filtered and divided into TCGA and GEO cohorts. The process of data analysis and visualization was performed via R software. The data were classified based on different PRGs subtypes using the K-means clustering method. Then, the differentially expressed genes were identified between two different subtypes, and risk factors analysis, survival analysis, functional enrichment analysis, and immune cells infiltration landscape analysis were conducted. The COX regression analysis was used to construct the prediction model. Results Based on the PRGs of LUAD, the patients were divided into two subtypes. We found the survival probability of patients in subtype 1 is higher than that in subtype 2. The results of the logistics analysis showed that gene risk score was closely associated with the prognosis of LUAD patients. The results of GO analysis and KEGG analysis revealed important biological processes and signaling pathways involved in the differentially expressed proteins between the two subtypes. Then we constructed a prediction model of patients’ prognosis based on 13 genes, including IL-1A, P2RX1, GSTM2, ESYT3, ZNF682, KCNF1, STK32A, HHIPL2, GDF10, NDC80, GSTA1, BCL2L10, and CCR2. This model was strongly related to the overall survival (OS) and also reflects the immune status in patients with LUAD. Conclusion In our study, we examined LUAD heterogeneity with reference to pyroptosis and found different prognoses between the two subtypes. And a novel prediction model was constructed to predict the OS of LUAD patients based on different PRGs signatures. The model has shown excellent predictive efficiency through validation.https://doi.org/10.1186/s40001-023-01581-xPyroptosisLung adenocarcinomaGeneSignatureSurvival |
| spellingShingle | Ziang Wen Bei Pei Longfei Dai Peng Lu Xiangyu Li Chengxin Zhang Shenglin Ge Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes European Journal of Medical Research Pyroptosis Lung adenocarcinoma Gene Signature Survival |
| title | Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes |
| title_full | Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes |
| title_fullStr | Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes |
| title_full_unstemmed | Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes |
| title_short | Risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis-related gene subtypes |
| title_sort | risk factors analysis and survival prediction model establishment of patients with lung adenocarcinoma based on different pyroptosis related gene subtypes |
| topic | Pyroptosis Lung adenocarcinoma Gene Signature Survival |
| url | https://doi.org/10.1186/s40001-023-01581-x |
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