Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score
BackgroundThe mechanisms of epigenetic regulation emerge as a fundamental determinant in the complex landscape of cancer initiation and advancement. However, the specific impact of epigenetic regulation on cancer progression remains unclear. To explore the relationship between epigenetic regulation...
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Frontiers Media S.A.
2025-02-01
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| Series: | Frontiers in Pharmacology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fphar.2025.1538205/full |
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| author | Ruiguang Zhang Shimin Jin Qi Xu Rongxiao Dai |
| author_facet | Ruiguang Zhang Shimin Jin Qi Xu Rongxiao Dai |
| author_sort | Ruiguang Zhang |
| collection | DOAJ |
| description | BackgroundThe mechanisms of epigenetic regulation emerge as a fundamental determinant in the complex landscape of cancer initiation and advancement. However, the specific impact of epigenetic regulation on cancer progression remains unclear. To explore the relationship between epigenetic regulation and cancer progression, we utilized transcriptomic data from The Cancer Genome Atlas (TCGA) datasets to investigate the association.MethodsWe obtained transcriptomic data of epigenetic gene dataset from the TCGA database and calculated an epigenetic score using the Least Absolute Shrinkage and Selection Operator (LASSO) Cox model. Additionally, we created a nomogram that integrates the epigenetic score and clinical features, providing a more comprehensive tool for tumor patients prognosis assessment.ResultsWe calculated the epigenetic score based on the expression levels of epigenetic-related genes. The nomogram we developed incorporates the epigenetic score and clinical characteristics. The epigenetic score was positively correlated with the expression of genes related to hallmarkers of cancer, including glycolysis, epithelial-mesenchymal transition (EMT), cell cycle, DNA repair, angiogenesis, and inflammatory response. Furthermore, we performed gene ontology (GO) and kyoto encyclopedia of genes and genomes (KEGG) analysis to explore the signaling pathways and biological processes in high epigenetic score group.ConclusionThe epigenetic scoring system developed in this investigation represents an innovative approach that demonstrates remarkable potential in forecasting survival trajectories across diverse cancer types. These groundbreaking insights not only illuminate the intricate interactions between epigenetic mechanisms and gene expression regulation in oncological contexts, but also indicate that the derived epigenetic metric could potentially emerge as a significant prognostic biomarker for cancer outcomes. |
| format | Article |
| id | doaj-art-249cf65debf744059e958c2c222908ec |
| institution | DOAJ |
| issn | 1663-9812 |
| language | English |
| publishDate | 2025-02-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Pharmacology |
| spelling | doaj-art-249cf65debf744059e958c2c222908ec2025-08-20T03:01:07ZengFrontiers Media S.A.Frontiers in Pharmacology1663-98122025-02-011610.3389/fphar.2025.15382051538205Exploring the role of epigenetic regulation in cancer prognosis with epigenetic scoreRuiguang Zhang0Shimin Jin1Qi Xu2Rongxiao Dai3Department of Neurosurgery, Jiading District Central Hospital Affiliated Shanghai University of Medicine and Health Sciences, Shanghai, ChinaDepartment of Neurosurgery, Jiading District Central Hospital Affiliated Shanghai University of Medicine and Health Sciences, Shanghai, ChinaDepartment of Gastroenterology, Second Affiliated Hospital of Dalian Medical University, Dalian, ChinaDepartment of Neurosurgery, Jiading District Central Hospital Affiliated Shanghai University of Medicine and Health Sciences, Shanghai, ChinaBackgroundThe mechanisms of epigenetic regulation emerge as a fundamental determinant in the complex landscape of cancer initiation and advancement. However, the specific impact of epigenetic regulation on cancer progression remains unclear. To explore the relationship between epigenetic regulation and cancer progression, we utilized transcriptomic data from The Cancer Genome Atlas (TCGA) datasets to investigate the association.MethodsWe obtained transcriptomic data of epigenetic gene dataset from the TCGA database and calculated an epigenetic score using the Least Absolute Shrinkage and Selection Operator (LASSO) Cox model. Additionally, we created a nomogram that integrates the epigenetic score and clinical features, providing a more comprehensive tool for tumor patients prognosis assessment.ResultsWe calculated the epigenetic score based on the expression levels of epigenetic-related genes. The nomogram we developed incorporates the epigenetic score and clinical characteristics. The epigenetic score was positively correlated with the expression of genes related to hallmarkers of cancer, including glycolysis, epithelial-mesenchymal transition (EMT), cell cycle, DNA repair, angiogenesis, and inflammatory response. Furthermore, we performed gene ontology (GO) and kyoto encyclopedia of genes and genomes (KEGG) analysis to explore the signaling pathways and biological processes in high epigenetic score group.ConclusionThe epigenetic scoring system developed in this investigation represents an innovative approach that demonstrates remarkable potential in forecasting survival trajectories across diverse cancer types. These groundbreaking insights not only illuminate the intricate interactions between epigenetic mechanisms and gene expression regulation in oncological contexts, but also indicate that the derived epigenetic metric could potentially emerge as a significant prognostic biomarker for cancer outcomes.https://www.frontiersin.org/articles/10.3389/fphar.2025.1538205/fullepigenetic regulationcancer prognosispan-cancerprognosis predictionnomogram |
| spellingShingle | Ruiguang Zhang Shimin Jin Qi Xu Rongxiao Dai Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score Frontiers in Pharmacology epigenetic regulation cancer prognosis pan-cancer prognosis prediction nomogram |
| title | Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| title_full | Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| title_fullStr | Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| title_full_unstemmed | Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| title_short | Exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| title_sort | exploring the role of epigenetic regulation in cancer prognosis with epigenetic score |
| topic | epigenetic regulation cancer prognosis pan-cancer prognosis prediction nomogram |
| url | https://www.frontiersin.org/articles/10.3389/fphar.2025.1538205/full |
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