Combining Bulk RNA-seq and scRNA-seq data to identify RNA m5C methyltransferases NSUN1: a rising star as a biomarker for cancer diagnosis, prognosis and therapy
机构：[1]Department of General Surgery, Xuanwu Hospital, Capital Medical University, Beijing, China外科系统普通外科首都医科大学宣武医院[2]The First Affiliated Hospital of Dalian Medical University, Dalian Medical University, Dalian, China大连医科大学附属第一医院
Background: RNA 5-methylcytosine (m5C) methyltransferases NSUN1 is a member of the NOP2/SUN (NSUN) RNA methyltransferase family. Studies have found that the expression of NSUN1 is elevated in breast and colon cancer and can predict poor prognosis. However, the NSUN1 gene has only been studied in a few tumors. Methods: Single-cell RNA sequencing (scRNA-seq) and Bulk RNA-seq data were used for comprehensive analysis of NSUN1 in cancers. The Human Protein Atlas (HPA) database was used to identify the gene location. Immunofluorescence staining was used to detect NSUN1 subcellular distribution within the nucleus, endoplasmic reticulum (ER), and microtubules of A-431, U-2, U-251 cells. The cBioPortal tool was used to analyze the alteration frequency and mutation type. The epigenetic profile of NSUN1 also was analyzed by using the University of Alabama at Birmingham CANcer data analysis Portal (UCLCAN). Tumor mutation burden (TMB), microsatellite instability (MSI), and immune checkpoint expression in cancers were analyzed. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) were used to perform enrichment and visualization. The study was based on online resources and public databases. Results: Elevated NSUN1 expression had been observed in most human cancers. Analysis of scRNA-seq data showed that NSUN1 was highly expressed in immune cells such as T cells, B cells, and dendritic (DC) cells. High NSUN1 expression indicated poor overall survival (OS) and disease-free survival (DFS). The characteristics of genetic alteration, methylation and phosphorylation of NSUN1 were analyzed and higher levels of phosphorylation in tumor tissues were found. In addition, the expression of NSUN1 was closely related to tumour-infiltrating immune cells. At the same time, the expression of NSUN1 was positively correlated with the expression of multiple immune checkpoints. and infiltrating immune cells of NSUN1 in human cancers were comprehensively analyzed. The results herein implied that NSUN1 may be an effective biomarker for early cancer diagnosis, prognosis and therapy.
基金：
Beijing Municipal Science amp; Technology Commission; [Z171100001017077]
第一作者机构：[1]Department of General Surgery, Xuanwu Hospital, Capital Medical University, Beijing, China
通讯作者：
通讯机构：[1]Department of General Surgery, Xuanwu Hospital, Capital Medical University, Beijing, China[2]The First Affiliated Hospital of Dalian Medical University, Dalian Medical University, Dalian, China[*1]Department of General Surgery, Xuanwu Hospital, Capital Medical University, 45 Changchun Rd., Beijing 100053, China[*2]The First Affiliated Hospital of Dalian Medical University, Dalian Medical University, 222 Zhongshan Rd., Xigang District, Dalian 116011, China.
推荐引用方式(GB/T 7714)：
Fang Zhen,Li Peijuan,Li Fei.Combining Bulk RNA-seq and scRNA-seq data to identify RNA m5C methyltransferases NSUN1: a rising star as a biomarker for cancer diagnosis, prognosis and therapy[J].TRANSLATIONAL CANCER RESEARCH.2023,12(9):2336-+.doi:10.21037/tcr-23-66.
APA：
Fang, Zhen,Li, Peijuan&Li, Fei.(2023).Combining Bulk RNA-seq and scRNA-seq data to identify RNA m5C methyltransferases NSUN1: a rising star as a biomarker for cancer diagnosis, prognosis and therapy.TRANSLATIONAL CANCER RESEARCH,12,(9)
MLA：
Fang, Zhen,et al."Combining Bulk RNA-seq and scRNA-seq data to identify RNA m5C methyltransferases NSUN1: a rising star as a biomarker for cancer diagnosis, prognosis and therapy".TRANSLATIONAL CANCER RESEARCH 12..9(2023):2336-+
