Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications
BackgroundWe conducted an investigation into the characteristics of single-cell differentiation data in gliomas, with a focus on developing DAPK1-based prognostic markers to predict patient outcomes. Dysregulated expression of DAPK1 has been associated with the invasive behavior of various malignanc...
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Frontiers Media S.A.
2025-01-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2024.1463747/full |
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| author | Tian-Hang Yu Yan-Yu Ding Yan-Yu Ding Si-Guo Zhao Jie-Hui Zhao Yu Gu Dong-Hui Chen Fang Zhang Wen-Ming Hong Wen-Ming Hong |
| author_facet | Tian-Hang Yu Yan-Yu Ding Yan-Yu Ding Si-Guo Zhao Jie-Hui Zhao Yu Gu Dong-Hui Chen Fang Zhang Wen-Ming Hong Wen-Ming Hong |
| author_sort | Tian-Hang Yu |
| collection | DOAJ |
| description | BackgroundWe conducted an investigation into the characteristics of single-cell differentiation data in gliomas, with a focus on developing DAPK1-based prognostic markers to predict patient outcomes. Dysregulated expression of DAPK1 has been associated with the invasive behavior of various malignancies, including gliomas. However, the precise role and underlying mechanisms of DAPK1 in gliomas remain inadequately understood.MethodsWe performed analyses on RNA-seq and microarray datasets from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO), in addition to single-cell RNA sequencing (scRNA-seq) data from glioma patients available in GEO. Utilizing the Seurat R package, we identified gene clusters associated with survival from the scRNA-seq data. Prognostic models were developed using LASSO and stepwise regression algorithms. Furthermore, we assessed the predictive potential of these genes within the immune microenvironment and their relevance in immunotherapy contexts.ResultsOur scRNA-seq data analysis revealed 32 distinct cell clusters corresponding to 10 cell types. Through dimensionality reduction and clustering, we identified three glial cell subpopulations based on their differentiation trajectories. DAPK1, serving as a marker gene for the terminal subpopulation, exhibited an association with poor prognosis.ConclusionsDAPK1-based prognostic models show promise for accurately predicting outcomes in glioblastoma and glioma. An in-depth examination of DAPK1’s specific mechanisms in glioblastoma could elucidate its role in immunotherapy response. Targeting the DAPK1 gene may offer therapeutic benefits for glioma patients. |
| format | Article |
| id | doaj-art-82e0ef7ef07f4817adb7808534aa8d07 |
| institution | Kabale University |
| issn | 1664-3224 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj-art-82e0ef7ef07f4817adb7808534aa8d072025-01-24T07:13:31ZengFrontiers Media S.A.Frontiers in Immunology1664-32242025-01-011510.3389/fimmu.2024.14637471463747Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implicationsTian-Hang Yu0Yan-Yu Ding1Yan-Yu Ding2Si-Guo Zhao3Jie-Hui Zhao4Yu Gu5Dong-Hui Chen6Fang Zhang7Wen-Ming Hong8Wen-Ming Hong9Department of Neurosurgery, First Affiliated Hospital of Anhui Medical University, Hefei, ChinaDepartment of Immunology, School of Basic Medicine, Anhui Medical University, Hefei, ChinaInstitute of Health and Medicine, Hefei Comprehensive National Center, Hefei, ChinaDepartment of Neurosurgery, First Affiliated Hospital of Anhui Medical University, Hefei, ChinaSchool of Nursing, Anhui Medical University, Hefei, ChinaSchool of Nursing, Anhui Medical University, Hefei, ChinaDepartment of Neurosurgery, Lu’an People’s Hospital, Luan, ChinaSchool of Nursing, Anhui Medical University, Hefei, ChinaDepartment of Neurosurgery, First Affiliated Hospital of Anhui Medical University, Hefei, ChinaOpen Project of Key Laboratory of Dermatology, Ministry of Education, Anhui Medical University, Hefei, ChinaBackgroundWe conducted an investigation into the characteristics of single-cell differentiation data in gliomas, with a focus on developing DAPK1-based prognostic markers to predict patient outcomes. Dysregulated expression of DAPK1 has been associated with the invasive behavior of various malignancies, including gliomas. However, the precise role and underlying mechanisms of DAPK1 in gliomas remain inadequately understood.MethodsWe performed analyses on RNA-seq and microarray datasets from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO), in addition to single-cell RNA sequencing (scRNA-seq) data from glioma patients available in GEO. Utilizing the Seurat R package, we identified gene clusters associated with survival from the scRNA-seq data. Prognostic models were developed using LASSO and stepwise regression algorithms. Furthermore, we assessed the predictive potential of these genes within the immune microenvironment and their relevance in immunotherapy contexts.ResultsOur scRNA-seq data analysis revealed 32 distinct cell clusters corresponding to 10 cell types. Through dimensionality reduction and clustering, we identified three glial cell subpopulations based on their differentiation trajectories. DAPK1, serving as a marker gene for the terminal subpopulation, exhibited an association with poor prognosis.ConclusionsDAPK1-based prognostic models show promise for accurately predicting outcomes in glioblastoma and glioma. An in-depth examination of DAPK1’s specific mechanisms in glioblastoma could elucidate its role in immunotherapy response. Targeting the DAPK1 gene may offer therapeutic benefits for glioma patients.https://www.frontiersin.org/articles/10.3389/fimmu.2024.1463747/fullgliomaDAPK1diagnosisprognosisimmune infiltrationtumor immune microenvironment |
| spellingShingle | Tian-Hang Yu Yan-Yu Ding Yan-Yu Ding Si-Guo Zhao Jie-Hui Zhao Yu Gu Dong-Hui Chen Fang Zhang Wen-Ming Hong Wen-Ming Hong Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications Frontiers in Immunology glioma DAPK1 diagnosis prognosis immune infiltration tumor immune microenvironment |
| title | Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications |
| title_full | Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications |
| title_fullStr | Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications |
| title_full_unstemmed | Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications |
| title_short | Single-cell sequencing uncovers the mechanistic role of DAPK1 in glioma and its diagnostic and prognostic implications |
| title_sort | single cell sequencing uncovers the mechanistic role of dapk1 in glioma and its diagnostic and prognostic implications |
| topic | glioma DAPK1 diagnosis prognosis immune infiltration tumor immune microenvironment |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2024.1463747/full |
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