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Published on: November 9, 2017
Multi-omic analyses of m5C readers reveal their characteristics and immunotherapeutic proficiency
1Department of Development Planning, International Medical Opening-up Pilot Zone (China), Fangchenggang, Guangxi Province, China.
Abstract:
5-methylcytosine (m5C) is a post-transcriptional RNA modification identified, m5C readers can specifically identify and bind to m5C. ALYREF and YBX1 as members of m5C readers that have garnered increasing attention in cancer research. However, comprehensive analysis of their molecular functions across pancancer are lacking. Using the TCGA and GTEx databases, we investigated the expression levels and prognostic values of ALYREF and YBX1. Additionally, we assessed the tumor microenvironment, immune checkpoint-related genes, immunomodulators, Tumor Immune Dysfunction and Exclusion (TIDE) score and drug resistance of ALYREF and YBX1. Gene Ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and Gene Set Enrichment Analysis (GSEA) analyses were performed to investigate the potential functions associated with m5C readers and coexpressed genes. Aberrant expression of ALYREF and YBX1 was observed and positively associated with prognosis in KIRP, LGG and LIHC. Furthermore, the expression levels of ALYREF and YBX1 were significantly correlated with immune infiltration of the tumor microenvironment and immune-related modulators. Last, our analysis revealed significant correlations between ALYREF, YBX1 and eIFs. Our study provides a substantial understanding of m5C readers and the intricate relationship between ALYREF, YBX1, eIFs, and mRNA dynamics. Through multidimensional analysis of immune infiltration and drug sensitivity/resistance in ALYREF and YBX1, we propose a possibility for combined modality therapy utilizing m5C readers.
Insights
This study analyzes 5-methylcytosine (m5C) readers ALYREF and YBX1 in cancer. Their expression correlates with prognosis and tumor microenvironment, suggesting potential therapeutic targets.
Area of Science:
- Oncology
- Molecular Biology
- Epigenetics
Background:
- 5-methylcytosine (m5C) is a key RNA modification.
- m5C readers, like ALYREF and YBX1, are crucial for m5C recognition.
- Their comprehensive roles in pan-cancer remain underexplored.
Purpose of the Study:
- To investigate the expression, prognostic value, and molecular functions of ALYREF and YBX1 across various cancers.
- To explore the association of ALYREF and YBX1 with the tumor microenvironment, immune landscape, and drug resistance.
- To elucidate the relationship between ALYREF, YBX1, eukaryotic initiation factors (eIFs), and mRNA dynamics.
Main Methods:
- Utilized TCGA and GTEx databases for expression and prognostic analyses.
- Assessed tumor microenvironment, immune checkpoints, immunomodulators, TIDE score, and drug resistance.
- Performed GO, KEGG, and GSEA analyses for functional enrichment.
Main Results:
- ALYREF and YBX1 showed aberrant expression, positively associated with prognosis in KIRP, LGG, and LIHC.
- Expression levels correlated significantly with tumor immune infiltration and immune modulators.
- Established correlations between ALYREF, YBX1, eIFs, and mRNA dynamics.
Conclusions:
- ALYREF and YBX1 play significant roles in cancer, influencing prognosis and the tumor immune microenvironment.
- Findings highlight the intricate interplay between m5C readers, eIFs, and mRNA processing.
- Suggests potential for combined modality therapy involving m5C readers for improved cancer treatment.
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