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基于生物信息学分析的圆锥角膜相关Hub基因及其通路的鉴定 被引量:1
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作者 朱叶 谭秋凡 +2 位作者 巩倩文 胡晓建 陈世豪 《温州医科大学学报》 CAS 2021年第2期111-117,共7页
目的:明确圆锥角膜(KC)潜在的目标基因并探讨其潜在的病理机制。方法:从GEO数据库中下载GSE77938的基因芯片数据并进行生物信息学分析。GSE77938数据集包含50个样本,包括25例KC患者和25例正常对照者。采用Cytoscape软件进行GO和KEGG富... 目的:明确圆锥角膜(KC)潜在的目标基因并探讨其潜在的病理机制。方法:从GEO数据库中下载GSE77938的基因芯片数据并进行生物信息学分析。GSE77938数据集包含50个样本,包括25例KC患者和25例正常对照者。采用Cytoscape软件进行GO和KEGG富集分析,并通过Cytoscape软件构建差异表达基因(DEGs)的蛋白相互作用(PPI)网络。结果:在KC中共鉴定出1547个DEGs,包括1103个上调基因和444个下调基因。GO分析结果显示,上调的DEGs在生物过程(BP)中的1220条通路中显著富集、细胞成分(CC)的黑素体的102条通路和分子功能(MF)的102条通路中显著富集。下调DEGs的富集功能在BP、CC和MF中分别为99、64和47个通路。KEGG通路分析显示上调的DEGs富集于72条通路,而下调的DEGs富集于8条通路。从PPI网络中鉴定出Hub基因TNF、JUN、IFNG、PTPRC、ICAM1、FOS、IL6、CXCL8、LCK、CSF2、MMP9、ITGAX、CD40LG和IL10,ClueGO分析发现这些基因涉及GO术语中的6条显著通路和KEGG中的3条通路。结论:所鉴定的DEGs和枢纽基因促进了对KC发生的分子机制的理解,其可能作为KC治疗的分子靶点和诊断性生物标志物。 展开更多
关键词 差异表达基因 生物信息学分析 圆锥角膜 蛋白质-蛋白质相互作用网络 cluego
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Dynamic changes of protein corona compositions on the surface of zinc oxide nanoparticle in cell culture media 被引量:1
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作者 Vo-Van Giau Yoon-Hee Park +2 位作者 Kyu-Hwan Shim Sang-Wook Son Seong-Soo A. An 《Frontiers of Chemical Science and Engineering》 SCIE EI CAS CSCD 2019年第1期90-97,共8页
The potential applications of nanomaterials used in nanomedicine as ingredients in drug delivery systems and in other products continue to expand. When nanomaterials are introduced into physiological environments and ... The potential applications of nanomaterials used in nanomedicine as ingredients in drug delivery systems and in other products continue to expand. When nanomaterials are introduced into physiological environments and driven by energetics, they readily associate proteins forming a protein corona (PC) on their surface. This PC could result in an alteration of the nanomatcrial's surface characteristics, affecting their interaction with cells due to conformational changes in adsorbed protein molecules. However, our current understanding of nanobiological interactions is still very limited. Utilizing a liquid chromatography-mass spectroscopy/mass spectroscopy technology and a Cytoscape plugin (ClueGO) approach, we examined the composition of the PC for a set of zinc oxide nanoparticles (ZnONP) from cell culture media typically and further analyzed the biological interaction of identified proteins, respectively. In total, 36 and 33 common proteins were investigated as being bound to ZnONP at 5 min and 60 min, respectively. These proteins were further analyzed with ClueGO, a Cytoscape plugin, which provided gene ontology and the biological interaction processes of identified proteins. Proteins bound to the surface of nanoparticles that may modify the structure, therefore the function of the adsorbed protein could be consequently affect the complicated biological processes. 展开更多
关键词 ZnONPs NANOPARTICLES PROTEIN CORONA cluego
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