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Using MeRIP-Seq in patient tissues and integrating large-scale transcriptome data, differentially expressed m6A-related genes were analyzed with Cox regression and LASSO modeling.",{"@graph":14,"@context":77},[15,34,56],{"@type":16,"itemListElement":17},"BreadcrumbList",[18,23,27,31],{"item":19,"name":20,"@type":21,"position":22},"https://docshare.wps.com","Home","ListItem",1,{"item":24,"name":25,"@type":21,"position":26},"https://docshare.wps.com/document/","Document",2,{"item":28,"name":29,"@type":21,"position":30},"https://docshare.wps.com/document/research-report/","Research & 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is the main purpose of this study on NPC?","Question",{"text":63,"@type":64},"To determine whether m6A methylation–related genes can serve as prognostic markers in nasopharyngeal carcinoma and clarify their biological and immune-related implications.","Answer",{"name":66,"@type":61,"acceptedAnswer":67},"What datasets and sequencing approaches were used?",{"text":68,"@type":64},"m6A methylation was profiled using MeRIP-Seq on NPC and noncancerous tissues, and the analysis integrated transcriptome sequencing data from a large NPC cohort, with additional single-cell and transcriptomic evaluations.",{"name":70,"@type":61,"acceptedAnswer":71},"How was the prognostic model constructed?",{"text":72,"@type":64},"Prognosis-associated genes were identified using differential analysis and univariate Cox regression, then a three-gene risk model was built using LASSO regression and validated using internal and external transcriptome databases.",{"name":74,"@type":61,"acceptedAnswer":75},"What were the key findings regarding risk groups and immune features?",{"text":76,"@type":64},"Lower-risk patients showed enrichment in immunity-related pathways, better survival-related characteristics, more favorable immune profiles, and increased responsiveness to immunotherapy compared with the higher-risk group.","https://schema.org",{"og:url":32,"og:type":79,"og:title":10,"og:site_name":45,"og:description":12},"article",{"robots":81,"canonical":32},"index,follow",{"doc_id":83,"site_id":7},329707,1790181703,{"code":4,"msg":86,"data":87},"success",[88,92,96,100,105,110,115,119,124,127,131],{"id":22,"doc_module":4,"doc_module_name":25,"category_name":89,"show_sort_weight":90,"slug":91},"Story & 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\nEDITED BY  \nZhihao Wang,  \nWuhan University, China  \nREVIEWED BY  \nZhuangzhuang Geng,  \nChildren ’s Hospital of Philadelphia, United States  \nXinyu Cao,  \nUniversity of Illinois Chicago, United States  \n*CORRESPONDENCE  \nYingming Sun  \n[yingmingsun@fjmu.edu.cn](yingmingsun@fjmu.edu.cn)[ ](yingmingsun@fjmu.edu.cn)Qinying Liu  \n [liuqinyingbio@163.com](liuqinyingbio@163.com)[ ](liuqinyingbio@163.com)Sufang Qiu  \n [sufangqiu@fjmu.edu.cn](sufangqiu@fjmu.edu.cn)  \n†These authors have contributed equally to this work  \nRECEIVED 07 September 2024  \nACCEPTED 21 November 2024  \nPUBLISHED 12 December 2024  \nCITATION  \nChen X, Xu W, Pan J, Yang H, Li Y, Chen X, Sun Y, Liu Q and Qiu S (2024) m6Amethylation proﬁling as a prognostic marker in nasopharyngeal carcinoma:  \ninsights from MeRIP-Seq and RNA-Seq. Front. Immunol. 15:1492648 .  \ndoi: 10.3389/fimmu.2024.1492648  \nCOPYRIGHT  \n© 2024 Chen, Xu, Pan, Yang, Li, Chen, Sun, Liu and Qiu. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) . The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.  \nm6A methylation proﬁlingas a prognostic marker innasopharyngeal carcinoma:  \ninsights from MeRIP-Seq and RNA-Seq  \nXiaochuan Chen 1†, Wenqian Xu 1†, Junping Pan 1†,  \nHanxuan Yang1, Yi Li 1, Xin Chen 1, Yingming Sun 2*, Qinying Liu 3* and Sufang Qiu 1*  \n1 Department of Radiation Oncology, Clinical Oncology School of Fujian Medical University, Fujian Cancer Hospital, Fuzhou, China, 2 Department of Radiation and Medical Oncology, Afﬁliated Sanming First Hospital of Fujian Medical University, Sanming, China, 3 Fujian Provincial Key Laboratory of Tumor Biotherapy, Clinical Oncology School of Fujian Medical University, Fujian Cancer Hospital,  \nFuzhou, China  \nBackground: Nasopharyngeal carcinoma (NPC) is a type of malignant tumors commonly found in Southeast Asia and China, with insidious onset and clinical symptoms. N6-methyladenosine (m6A) modiﬁcation signiﬁcantly contributes to tumorigenesis and progression by altering RNA secondary structure and inﬂuencing RNA-protein binding at the transcriptome level. However, the mechanism and role of abnormal m6A modiﬁcation in nasopharyngeal carcinoma remain unclear.  \nMethods: Nasopharyngeal Carcinoma tissues from 3 patients and noncancerous nasopharyngeal tissues from 3 individuals, all from Fujian Cancer Hospital, were sequenced for m6A methylation. These were combined with transcriptome sequencing data from 192 nasopharyngeal cancer tissues. Genes linked to prognosis were discovered using differential analysis and univariate Cox regression. Subsequently, a prognostic model associated with m6A was developed through the application of LASSO regression analysis. The model’s accuracy was veriﬁed using both internal transcriptome databases and external databases. An extensive evaluation of the tumor’s immune microenvironment and signaling pathways was performed, analyzing both transcriptomic and single-cell data.  \nResults: The m6A methylation sequencing analysis revealed 194 genes with varying expression levels, many of which are predominantly associated with immune pathways. By integrating transcriptome sequencing data, 19 m6Amodiﬁed genes were found to be upregulated in tumor tissues, leading to the development of a three-gene (EME1, WNT4, SHISA2) risk prognosis model. The group with lower risk exhibited notable enrichment in pathways related to immunity, displaying traits like enhanced survival rates, stronger immune proﬁles, and increased responsiveness to immunotherapy when compared to the higher-risk group. Single-cell analy","cbCaicFFrzTYsq6Y","https://ap.wps.com/l/cbCaicFFrzTYsq6Y","pdf",6332082,12,"English","# Background\n# Methods\n# Results\n# Conclusions","[{\"question\":\"What is the main purpose of this study on NPC?\",\"answer\":\"To determine whether m6A methylation–related genes can serve as prognostic markers in nasopharyngeal carcinoma and clarify their biological and immune-related implications.\"},{\"question\":\"What datasets and sequencing approaches were used?\",\"answer\":\"m6A methylation was profiled using MeRIP-Seq on NPC and noncancerous tissues, and the analysis integrated transcriptome sequencing data from a large NPC cohort, with additional single-cell and transcriptomic evaluations.\"},{\"question\":\"How was the prognostic model constructed?\",\"answer\":\"Prognosis-associated genes were identified using differential analysis and univariate Cox regression, then a three-gene risk model was built using LASSO regression and validated using internal and external transcriptome databases.\"},{\"question\":\"What were the key findings regarding risk groups and immune features?\",\"answer\":\"Lower-risk patients showed enrichment in immunity-related pathways, better survival-related characteristics, more favorable immune profiles, and increased responsiveness to immunotherapy compared with the higher-risk group.\"}]","m6A methylation profiling as a prognostic marker in nasopharyngeal carcinoma - Insights from MeRIP-Seq and RNA-Seq | PDF",1789985268]