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颈动脉斑块与斑块旁组织基因差异表达和信号通路分析
作者:
作者单位:

(1.咸宁市中心医院血管外科 湖北科技学院附属第一医院,湖北省咸宁市 437100;2.湖北科技学院基础医学院,湖北省咸宁市 437100)

作者简介:

夏红利,博士,副主任医师,研究方向为动脉闭塞症及周围动脉病变,E-mail为 mobei_hu@126.com。通信作者李敏才,博士,教授,研究方向为动脉硬化及成体干细胞,E-mail为mincaili@163.com。

基金项目:

湖北省自然科学基金(2018CFB737)；湖北科技学院科学基金(2018-19XZY2,9-20XZ01)


The differential gene expression and signaling pathway analysis between the atherosclerotic plaque and the distant tissue in carotid artery
Author:
Affiliation:

1.Department of Vascular Surgery, Xianning Central Hospital & the First Affiliated Hospital of Hubei University of Science and Technology, Xianning, Hubei 437100, China;2.School of Basic Sciences, Hubei University of Science and Technology, Xianning, Hubei 437100, China)

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    摘要:

    目的 基于颈动脉粥样硬化斑块中基因芯片数据分析差异性基因表达、信号传导通路及蛋白质网络分析。方法 从基因表达数据库(GEO)下载GSE43292基因芯片数据,数据预处理后,使用在线R软件分析颈动脉斑块和斑块旁组织中差异表达的基因,运用生物医学信息学GSEA方法进行富集GO分析和Pathway分析,并对差异性基因行蛋白质网络分析。结果 芯片数据分析显示,颈动脉斑块和斑块旁组织中表达水平显著上调的有87个基因,表达水平显著下调的有60个基因(P均<0.01),并绘制成热图。GSEA的GO功能富集分析发现,差异表达多与抗原结合、丝氨酸水解酶活性、趋化因子受体结合相关。GSEA的Pathway富集分析显示,差异表达上调基因与造血干细胞系、溶酶体、细胞因子受体相互作用等通路中富集。STRING分析筛选出IL-8、CXCL-10、SELE、MMP-9、IL-18共5个核心基因。结论 通过生物信息学方法对GEO基因芯片数据分析,发现了动脉粥样硬化斑块中差异性基因的相关信号传导通路及蛋白质的核心基因,为动脉粥样硬化研究提供基础资料。

    Abstract:

    Aim The differential gene expression, signaling pathways and protein network were analyzed from the gene chip data for carotid atherosclerotic plaques. Methods GSE43292 was downloaded from the gene expression omnibus (GEO) database and the data was adjusted. The significant differential genes were analyzed by R software in GSE43292. The geneontolgy (GO) analysis and pathway analysis were performed by bioinformatics GSEA, and the significant differential gene was analyzed by Cytoscape. Results After GSE42392 was analyzed, the 87 up-regulated genes and the 60 down-regulated genes were found as the significant different expression gene (P<0.01) between the atherosclerotic plaques and the distant tissues in carotid artery. The heatmap showed the different expression genes. The enriched GO analysis of GSEA revealed that the main differential expressions were associated with the antigen binding, the serine hydrolase activity and the chemokine receptor binding. The pathway analysis of GSEA revealed that the main differential expression were associated with hematopoietic stem cells, lysosomal and cytokine receptor interactions. Cytoscape analysis performed the five core genes, including IL-8, CXCL-10, SELE, MMP-9 and IL-18. Conclusions The bioinformatics analysis of GSE42392 data revealed that the differential genes enriched the related signaling pathways and the core genes were found between the atherosclerotic plaque and the distant tissue in carotid atherosclerotic plaques. These research provided the basic data for atherosclerosis research and treatment.

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夏红利,刘国利,吴岸森,赵蓉,李敏才.颈动脉斑块与斑块旁组织基因差异表达和信号通路分析[J].中国动脉硬化杂志,2019,27(8):661~666.

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  • 收稿日期:2018-11-12
  • 最后修改日期:2019-01-05
  • 在线发布日期: 2019-07-08

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