Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration
The tumor-associated macrophages (TAM) play a crucial role in lung adenocarcinoma (LUAD), which can cause the proliferation, migration and invasion of tumor cells. In particular, TAMs mainly regulate changes in the tumor microenvironment thereby contributing to tumorigenesis and progression. Recentl...
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| Format: | Article |
| Language: | English |
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Elsevier
2024-03-01
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| Series: | Heliyon |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S240584402403617X |
| _version_ | 1797224181158379520 |
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| author | Xu Zhang Liwei Wu Xiaotian Zhang Yanlong Xu |
| author_facet | Xu Zhang Liwei Wu Xiaotian Zhang Yanlong Xu |
| author_sort | Xu Zhang |
| collection | DOAJ |
| description | The tumor-associated macrophages (TAM) play a crucial role in lung adenocarcinoma (LUAD), which can cause the proliferation, migration and invasion of tumor cells. In particular, TAMs mainly regulate changes in the tumor microenvironment thereby contributing to tumorigenesis and progression. Recently, an increasing number of studies are using single-cell RNA (Sc-RNA) sequencing to investigate changes in the composition and transcriptomics of the tumor microenvironment. We obtained Sc-RNA sequencing data of LUAD from GEO database and transcriptome data with clinical information of LUAD patients from TCGA database. A group of important genes in the state transition of TAMs was identified by analyzing TAMs at the single-cell level, while 5 TAM-related prognostic genes were obtained by omics data integration, and a prognostic model was constructed. GOBP analysis revealed that TAM-related genes were mainly enriched in tumor-promoting and immunosuppression-related pathways. After ROC analysis, it was found that the AUC of the prognosis model reached 0.751, with well predictive effectiveness. The 5 unique genes, HLA-DMB, HMGN3, ID3, PEBP1, and TUBA1B, was finally identified through synthesized analysis. The transcriptional characteristics of 5 genes were determined through GEPIA2 database and RT-qPCR. The increased expression of TUBA1B in advanced LUAD may serve as a prognostic indicator, while low expression of PEBP1 in LUAD may have the potential to become a therapeutic target. |
| first_indexed | 2024-04-24T13:49:02Z |
| format | Article |
| id | doaj.art-2bab01dbc25346449c710be2113496f0 |
| institution | Directory Open Access Journal |
| issn | 2405-8440 |
| language | English |
| last_indexed | 2024-04-24T13:49:02Z |
| publishDate | 2024-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Heliyon |
| spelling | doaj.art-2bab01dbc25346449c710be2113496f02024-04-04T05:05:12ZengElsevierHeliyon2405-84402024-03-01106e27586Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integrationXu Zhang0Liwei Wu1Xiaotian Zhang2Yanlong Xu3Department of Surgery, Jinshan Hospital of Fudan University, Fudan University, Shanghai, PR ChinaDepartment of Thoracic Surgery, Shanghai Public Health Clinical Center, Fudan University, Shanghai, PR China; Corresponding author. Department of Thoracic Surgery, Shanghai Public Health Clinical Center, Fudan University Shanghai, Caolang Highway 2901#, Jinshan district, Shanghai, PR China.Department of Surgery, Shanghai Fifth People's Hospital, Fudan University, Shanghai, PR China; Corresponding author.Department of Surgery, Jinshan Hospital of Fudan University, Fudan University, Shanghai, PR China; Corresponding author. Department of Surgery, Jinshan Hospital of Fudan University, Fudan University Shanghai, Longhang Road 1508#, Jinshan district, Shanghai, PR China.The tumor-associated macrophages (TAM) play a crucial role in lung adenocarcinoma (LUAD), which can cause the proliferation, migration and invasion of tumor cells. In particular, TAMs mainly regulate changes in the tumor microenvironment thereby contributing to tumorigenesis and progression. Recently, an increasing number of studies are using single-cell RNA (Sc-RNA) sequencing to investigate changes in the composition and transcriptomics of the tumor microenvironment. We obtained Sc-RNA sequencing data of LUAD from GEO database and transcriptome data with clinical information of LUAD patients from TCGA database. A group of important genes in the state transition of TAMs was identified by analyzing TAMs at the single-cell level, while 5 TAM-related prognostic genes were obtained by omics data integration, and a prognostic model was constructed. GOBP analysis revealed that TAM-related genes were mainly enriched in tumor-promoting and immunosuppression-related pathways. After ROC analysis, it was found that the AUC of the prognosis model reached 0.751, with well predictive effectiveness. The 5 unique genes, HLA-DMB, HMGN3, ID3, PEBP1, and TUBA1B, was finally identified through synthesized analysis. The transcriptional characteristics of 5 genes were determined through GEPIA2 database and RT-qPCR. The increased expression of TUBA1B in advanced LUAD may serve as a prognostic indicator, while low expression of PEBP1 in LUAD may have the potential to become a therapeutic target.http://www.sciencedirect.com/science/article/pii/S240584402403617XTumor-associated macrophages (TAM)TUBA1BPEBP1Lung adenocarcinoma (LUAD)SurvivalThe cancer genome atlas (TCGA) |
| spellingShingle | Xu Zhang Liwei Wu Xiaotian Zhang Yanlong Xu Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration Heliyon Tumor-associated macrophages (TAM) TUBA1B PEBP1 Lung adenocarcinoma (LUAD) Survival The cancer genome atlas (TCGA) |
| title | Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| title_full | Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| title_fullStr | Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| title_full_unstemmed | Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| title_short | Identifying the tumor-associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| title_sort | identifying the tumor associated macrophage of lung adenocarcinoma reveals immune landscape through omics data integration |
| topic | Tumor-associated macrophages (TAM) TUBA1B PEBP1 Lung adenocarcinoma (LUAD) Survival The cancer genome atlas (TCGA) |
| url | http://www.sciencedirect.com/science/article/pii/S240584402403617X |
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