单核细胞与未成熟树突状细胞粘附相关差异表达基因筛选及相互作用分析  

Screening of Adhesion-related Differentially Expressed Genes and Analysis of Interaction between Monocytes and Immature Dendritic Cells

作　　者：王玉林 胡祖权 叶远浓 唐福州 曾柱 Wang Yulin;Hu Zuquan;Ye Yuannong;Tang Fuzhou;Zeng Zhu(School of Biology and Engineering, Guizhou Medical University, Guiyang, 55002)

机构地区：[1]贵州医科大学生物与工程学院

出　　处：《基因组学与应用生物学》2018年第5期2228-2235,共8页Genomics and Applied Biology

基　　金：国家自然科学基金资助项目(31260227;11162003);中国博士后科学基金(2015M582758XB);贵州省树突细胞基础与应用开发科技创新人才团队(黔科合人才团队(2015)4021);贵州省留学回国人员择优资助项目(2013-8);贵州省2011协同创新计划(黔教合协同创新字(2015)04);贵州省科技项目(黔科合J字(2013)2058号和黔科合LH字(2014)7092)共同资助

摘　　要：本研究目的是分析单核细胞（monocytes,mon）与未成熟树突状细胞（immature DCs,im DCs）两个不同发育阶段间差异表达基因的功能及其编码蛋白的相互作用,筛选出粘附相关的关键基因,并进行生物信息学分析。我们从NCBI（美国国立生物技术信息中心）公共数据平台GEO（Gene Expression Omnibus）下载基因芯片数据GSE15076,使用perl语言将探针id转换成gene symbol。利用R Bioconducto软件（RGui 3.3.1）解析原始数据并筛选差异基因。进一步利用STRING online工具筛选核心差异基因（可信度≥0.4）,Cytoscape软件构造蛋白质相互作用网络图。对STRING online工具筛选核心差异基因进行京都基因与基因组百科全书（kyotoencyclopedia of genes and genomes,KEGG）分析。im DCs相对于mon表达的差异基因,过滤条件为Log FC〉2和adj.p.val〈0.01。通过分析,我们共找到1 223个差异基因,其中567个上调基因,656个下调基因,通过进一步筛选,在网络中的上调基因有399个,下调基因458个,主要涉及m TOR信号通路、细胞代谢、细胞粘附等功能。其中上调基因中CDH1,CD274等差异基因与细胞粘附密切相关,而下调基因中SELL、IL-6、TNF等差异基因与细胞粘附改变密切相关。因此,在单核细胞发育分化到未成熟树突细胞阶段,粘附相关基因的表达变化,对进一步深入理解im DCs独特的生物物理学特性和免疫学功能来说具有重要意义。为进一步研究DCs细胞粘附功能的分子机制提供指导。The thesis investigates the functions of differentially expressed genes and the interaction of encoded protein between monocytes and immature dendritic cells（im DCs） in different differentiation stages,in order to find out their adhesion related core node genes and carries out bioinformatics analysis.Gene chip data GSE15076 were obtained from the GEO database（chip number：GSE15076）.The data were converted gene symbol by perl language.The original data was analyzed using R language software（RGui 3.3.1） and the differential genes were screened.Further using the STRING online tool to screen for core differential genes（confidence≥0.4） and construct the protein interaction network diagram thought Cytoscape software,and then analyze the core differential genes in the Kyoto Gene and Genome Encyclopedia（KEGG）.Compared with the differential genes expressed by mon,for those of im DCs,the filter conditions are Log FC 2 and adj.p.val 0.01.Through the analysis,compare to mon,there were 1 223 differential genes in im DCs,including 567 up-regulated genes and 656 down-regulated genes.By further screening,399 genes are up-regulated and 458 genes are down-regulated in the network,these differential genes were mainly related to m TOR signal pathway,cell metabolism,cell adhesion and other functions.The differential genes such as CDH1 and CD274 of up-regulated genes are closely related to cell adhesion and the differential genes such as SELL,IL-6 and TNF of down-regulated genes are closely related to cell adhesion.It is important to further understand the unique biophysical characteristics and immunological functions of im DCs when the monocytes develop and differentiate into immature dendritic cells,which also provides guidance for further study on the molecular mechanism of DCs cell adhesion.

关 键 词：单核细胞 未成熟树突状细胞 基因芯片分析 生物信息学 细胞粘附 

分 类 号：R730.51[医药卫生—肿瘤]