基于生物信息学分析结肠癌的预后相关基因及其与免疫细胞的相关性  

Prognostic genes in colon cancer and their correlation with immune cells:an analysis based on bioinformatics

作　　者：顾智文 巫殷腾 廖存[1] 马辉[1] 张森[1] 张小龙[1] Gu Zhiwen;Wu Yinteng;Liao Cun;Ma Hui;Zhang Sen;Zhang Xiaolong(Department of Colorectal&Anal Surgery,The First Affiliated Hospital of Guangxi Medical University/Guangxi Key Lab of Basic Research of Enhanced Recovery after Surgery for Intestinal Tumor,Nanning 530021,Guangxi Zhuang Autonomous Region,China)

机构地区：[1]广西医科大学第一附属医院结直肠肛门外科/广西消化道肿瘤加速康复外科基础研究重点实验室,广西南宁530021

出　　处：《结直肠肛门外科》2022年第3期255-260,265,共7页Journal of Colorectal & Anal Surgery

基　　金：广西高校科研资助项目(2013YB060)。

摘　　要：目的探索结肠癌的预后相关基因及其与免疫细胞的相关性。方法通过GEO数据库筛选差异表达基因(DEGs),使用R“clusterprofiler”包进行功能富集分析。筛选出预后相关基因,并通过qPCR实验验证预后相关基因的表达。使用cibersort算法分析预后相关基因与免疫细胞的相关性。结果对GSE21510、GSE18105和GSE20916数据集进行分析并取交集,获得50个共同上调DEGs和130个共同下调DEGs,即180个交集基因。在GO功能富集分析方面,交集基因主要富集在细胞对无机物质的反应、锌离子反应、细胞锌离子稳态、铜离子解毒、对铜离子的应力响应等生物学过程(BP)上;在细胞组成(CC)方面,交集基因主要富集在细胞顶端部分、顶端质膜、质膜的外侧、基底质膜等;在分子功能(MF)方面,交集基因主要富集在离子跨膜转运体的活性、G蛋白-偶联受体结合、金属肽酶活性、羧酸跨膜转运体的活性等。在KEGG功能富集方面,交集基因主要参与矿物吸收,胆汁分泌,病毒蛋白与细胞因子及细胞因子受体的相互作用,PPAR信号通路等。GCNT2与结肠癌预后相关,在结肠癌中低表达。免疫细胞相关性分析发现,GCNT2与幼稚B细胞、调节性T细胞、活化性自然杀伤细胞、滤泡辅助性T细胞呈正相关,与静息性自然杀伤细胞呈负相关。结论GCNT2与结肠癌预后相关,其可能通过调节免疫细胞的活性参与结肠癌的发展。Objectives To identify prognostic genes in colon cancer and their correlation with immune cells.Methods Differentially expressed genes(DEGs)were screened using the Gene Expression Omnibus(GEO)database.The R clusterprofile package was used for functional enrichment analysis.The prognosis-related genes were screened and their expression was verified by qPCR.Cibersort algorithm was used to analyze the correlation between prognostic genes and immune cells.Results Data sets of GSE21510,GSE18105 and GSE20916 were analyzed and intersected,and 50 co-up-regulated DEGs and 130 co-down-regulated DEGs were obtained,namely 180 intersecting genes were obtained.In terms of GO functional enrichment,intersecting genes were mainly enriched in biological processes(BP)such as cell reaction to inorganic substances,zinc ion reaction,cell zinc ion homeostasis,copper ion detoxification,and stress response to copper ion.In terms of cell composition(CC),the intersecting genes were mainly concentrated in the apical part of cells,apical plasma membrane,lateral plasma membrane,basal plasma membrane,etc.In terms of molecular function(MF),the intersecting genes are mainly enriched in ion transmembrane transporter activity,G-protein-coupled receptor binding,metal peptidase activity,carboxylic acid transmembrane transporter activity,etc.In terms of KEGG functional enrichment,the intersecting genes were mainly involved in mineral absorption,bile secretion,interaction between virus proteins and cytokines and cytokine receptors,PPAR signaling pathway,etc.GCNT2 was associated with colon cancer prognosis and had low expression in colon cancer.Analysis of correlation with immune cells showed that GCNT2 was positively correlated with naive B cells,regulatory T cells,activated natural killer cells,and follicular helper T cells while negatively correlated with resting natural killer cells.Conclusion GCNT2 is associated with the prognosis of colon cancer.It may also be involved in the development of colon cancer via regulating the activity of immune cells

关 键 词：结肠癌 预后 免疫细胞 GCNT2 

分 类 号：R735.35[医药卫生—肿瘤] Q811.4[医药卫生—临床医学]