1. m 6 A regulator-based methylation modification patterns characterized by distinct tumor microenvironment immune profiles in colon cancer.
- Author
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Chong W, Shang L, Liu J, Fang Z, Du F, Wu H, Liu Y, Wang Z, Chen Y, Jia S, Chen L, Li L, and Chen H
- Subjects
- Adenosine chemistry, Biomarkers, Tumor immunology, Colonic Neoplasms drug therapy, Colonic Neoplasms genetics, Colonic Neoplasms pathology, Humans, Transcriptome, Adenosine analogs & derivatives, Biomarkers, Tumor genetics, Colonic Neoplasms immunology, DNA Methylation, Gene Expression Regulation, Neoplastic, Lymphocytes, Tumor-Infiltrating immunology, Tumor Microenvironment immunology
- Abstract
Recent studies have highlighted the biological significance of RNA N
6 -methyladenosine (m6 A) modification in tumorigenicity and progression. However, it remains unclear whether m6 A modifications also have potential roles in immune regulation and tumor microenvironment (TME) formation. Methods : In this study, we curated 23 m6 A regulators and performed consensus molecular subtyping with NMF algorithm to determine m6 A modification patterns and the m6 A-related gene signature in colon cancer (CC). The ssGSEA and CIBERSORT algorithms were employed to quantify the relative infiltration levels of various immune cell subsets. An PCA algorithm based m6 Sig scoring scheme was used to evaluate the m6 A modification patterns of individual tumors with an immune response. Results : Three distinct m6A modification patterns were identified among 1307 CC samples, which were also associated with different clinical outcomes and biological pathways. The TME characterization revealed that the identified m6 A patterns were highly consistent with three known immune profiles: immune-inflamed, immune-excluded, and immune-desert, respectively. Based on the m6 Sig score, which was extracted from the m6 A-related signature genes, CC patients can be divided into high and low score subgroups. Patients with lower m6 Sig score was characterized by prolonged survival time and enhanced immune infiltration. Further analysis indicated that lower m6 Sig score also correlated with greater tumor mutation loads, PD-L1 expression, and higher mutation rates in SMGs (e.g., PIK3CA and SMAD4 ). In addition, patients with lower m6 Sig scores showed a better immune responses and durable clinical benefits in three independent immunotherapy cohorts. Conclusions : This study highlights that m6 A modification is significantly associated with TME diversity and complexity. Quantitatively evaluating the m6 A modification patterns of individual tumors will strengthen our understanding of TME characteristics and promote more effective immunotherapy strategies., Competing Interests: Competing Interests: The authors have declared that no competing interest exists., (© The author(s).)- Published
- 2021
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