Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer
IntroductionMacrophages are components of the innate immune system and can play an anti-tumor or pro-tumor role in the tumor microenvironment owing to their high heterogeneity and plasticity. Meanwhile, prostate cancer (PCa) is an immune-sensitive tumor, making it essential to investigate the value...
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| Format: | Article |
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Frontiers Media S.A.
2023-04-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1122670/full |
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| author | Weian Zhu Jianjie Wu Jiongduan Huang Dongming Xiao Fengao Li Chenglun Wu Xiaojuan Li Hengda Zeng Jiayu Zheng Wenjie Lai Wenjie Lai Xingqiao Wen |
| author_facet | Weian Zhu Jianjie Wu Jiongduan Huang Dongming Xiao Fengao Li Chenglun Wu Xiaojuan Li Hengda Zeng Jiayu Zheng Wenjie Lai Wenjie Lai Xingqiao Wen |
| author_sort | Weian Zhu |
| collection | DOAJ |
| description | IntroductionMacrophages are components of the innate immune system and can play an anti-tumor or pro-tumor role in the tumor microenvironment owing to their high heterogeneity and plasticity. Meanwhile, prostate cancer (PCa) is an immune-sensitive tumor, making it essential to investigate the value of macrophage-associated networks in its prognosis and treatment.MethodsMacrophage-related marker genes (MRMGs) were identified through the comprehensive analysis of single-cell sequencing data from GSE141445 and the impact of macrophages on PCa was evaluated using consensus clustering of MRMGs in the TCGA database. Subsequently, a macrophage-related marker gene prognostic signature (MRMGPS) was constructed by LASSO-Cox regression analysis and grouped based on the median risk score. The predictive ability of MRMGPS was verified by experiments, survival analysis, and nomogram in the TCGA cohort and GEO-Merged cohort. Additionally, immune landscape, genomic heterogeneity, tumor stemness, drug sensitivity, and molecular docking were conducted to explore the relationship between MRMGPS and the tumor immune microenvironment, therapeutic response, and drug selection.ResultsWe identified 307 MRMGs and verified that macrophages had a strong influence on the development and progression of PCa. Furthermore, we showed that the MRMGPS constructed with 9 genes and the predictive nomogram had excellent predictive ability in both the TCGA and GEO-Merged cohorts. More importantly, we also found the close relationship between MRMGPS and the tumor immune microenvironment, therapeutic response, and drug selection by multi-omics analysis.DiscussionOur study reveals the application value of MRMGPS in predicting the prognosis of PCa patients. It also provides a novel perspective and theoretical basis for immune research and drug choices for PCa. |
| first_indexed | 2024-04-09T18:06:49Z |
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| id | doaj.art-70eff9e9a74c446c93174b4c2b526922 |
| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-04-09T18:06:49Z |
| publishDate | 2023-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj.art-70eff9e9a74c446c93174b4c2b5269222023-04-14T05:32:25ZengFrontiers Media S.A.Frontiers in Immunology1664-32242023-04-011410.3389/fimmu.2023.11226701122670Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancerWeian Zhu0Jianjie Wu1Jiongduan Huang2Dongming Xiao3Fengao Li4Chenglun Wu5Xiaojuan Li6Hengda Zeng7Jiayu Zheng8Wenjie Lai9Wenjie Lai10Xingqiao Wen11Department of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, Anqing First People’s Hospital of Anhui Medical University, Anqing, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Health Care, Shenzhen Hospital, Southern Medical University, Shenzhen, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaLaboratory of Biomaterials and Translational Medicine, Center for Nanomedicine, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaDepartment of Urology, The Third Affiliated Hospital, Sun Yat-sen University, Guangzhou, ChinaIntroductionMacrophages are components of the innate immune system and can play an anti-tumor or pro-tumor role in the tumor microenvironment owing to their high heterogeneity and plasticity. Meanwhile, prostate cancer (PCa) is an immune-sensitive tumor, making it essential to investigate the value of macrophage-associated networks in its prognosis and treatment.MethodsMacrophage-related marker genes (MRMGs) were identified through the comprehensive analysis of single-cell sequencing data from GSE141445 and the impact of macrophages on PCa was evaluated using consensus clustering of MRMGs in the TCGA database. Subsequently, a macrophage-related marker gene prognostic signature (MRMGPS) was constructed by LASSO-Cox regression analysis and grouped based on the median risk score. The predictive ability of MRMGPS was verified by experiments, survival analysis, and nomogram in the TCGA cohort and GEO-Merged cohort. Additionally, immune landscape, genomic heterogeneity, tumor stemness, drug sensitivity, and molecular docking were conducted to explore the relationship between MRMGPS and the tumor immune microenvironment, therapeutic response, and drug selection.ResultsWe identified 307 MRMGs and verified that macrophages had a strong influence on the development and progression of PCa. Furthermore, we showed that the MRMGPS constructed with 9 genes and the predictive nomogram had excellent predictive ability in both the TCGA and GEO-Merged cohorts. More importantly, we also found the close relationship between MRMGPS and the tumor immune microenvironment, therapeutic response, and drug selection by multi-omics analysis.DiscussionOur study reveals the application value of MRMGPS in predicting the prognosis of PCa patients. It also provides a novel perspective and theoretical basis for immune research and drug choices for PCa.https://www.frontiersin.org/articles/10.3389/fimmu.2023.1122670/fullprostate cancermacrophage-related marker geneprognostic signaturetumor immunitygenomic heterogeneitydrug choices |
| spellingShingle | Weian Zhu Jianjie Wu Jiongduan Huang Dongming Xiao Fengao Li Chenglun Wu Xiaojuan Li Hengda Zeng Jiayu Zheng Wenjie Lai Wenjie Lai Xingqiao Wen Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer Frontiers in Immunology prostate cancer macrophage-related marker gene prognostic signature tumor immunity genomic heterogeneity drug choices |
| title | Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer |
| title_full | Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer |
| title_fullStr | Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer |
| title_full_unstemmed | Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer |
| title_short | Multi-omics analysis reveals a macrophage-related marker gene signature for prognostic prediction, immune landscape, genomic heterogeneity, and drug choices in prostate cancer |
| title_sort | multi omics analysis reveals a macrophage related marker gene signature for prognostic prediction immune landscape genomic heterogeneity and drug choices in prostate cancer |
| topic | prostate cancer macrophage-related marker gene prognostic signature tumor immunity genomic heterogeneity drug choices |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1122670/full |
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