基于GEO数据库进行人类皮肤芯片核苷酸切除修复基因XPA表达的差异性  

Parallel Mining of Gene Expression Differences of Nucleotide Excision Repair Gene XPA in Human Skin Microarrays based on GEO Database

作　　者：张璐 吕乐春 吴艳瑞 袁方 唐文羽 邹显强 李春银 赵敏 ZHANG Lu;LV Le-chun;WU Yan-rui;TANG Wen-yu;ZOU Xian-qiang;LI Chun-yin;ZHAO Min(Basic Medical College of Kunming Medical University,Kunming Yunnan 650500,China)

机构地区：[1]昆明医科大学基础医学院,云南昆明650500

出　　处：《昆明医科大学学报》2018年第3期38-41,共4页Journal of Kunming Medical University

基　　金：云南省教育厅科学研究基金资助项目(2014z063)

摘　　要：目的从系统水平平行分析碱基切除修复相关途径中的重要基因XPA在众多人类皮肤疾病中的差异表达情况.方法通过生物信息学的方法,利用ScanGEO工具对GEO数据库中59个皮肤或皮肤疾病样品相关的基因芯片数据从核苷酸切除修复途径进行平行比对,对XPA表达具有统计学意义的样本进行筛选和差异分析.结果在皮肤恶性黑色素瘤、表皮损伤模型、DNA损伤和紫外线辐射、包皮成纤维细胞对弓形体RH 1型(ROP5)突变体感染的反应、白细胞介素-20亚族细胞因子对表皮角化细胞的影响、Egr-1对皮肤成纤维细胞体外过度表达的影响:时间过程、炎性树突状细胞的体外模型7个芯片样本中XPA的表达存在差异(P<0.05),一般呈现下调表达.结论基于GEO数据库和ScanGEO工具能够高效进行高通量共享数据的筛选和分析.Objective To make a parallel mining the data of expression differences of a crucial gene XPA involved in nucleotide excision repair pathway of human skin microarrays by bioinformatics from the system level.Methods Using the ScanGEO,the data of microarrays which included the significant differences expression level of XPA were screened and analyzed from 59 human skin samples in the GEO database.Results There were 7 samples with the down-regulated expression of XPA:cutaneous malignant melanoma,epidermal injury model,DNA damage and UV radiation,foreskin fibroblast response to Toxoplasma gondii RH type 1(ROP5)mutant infection,interleukin-20 subfamily cytokines effect on epidermal keratinocytes,Egr-1 overexpression effect on skin fibroblasts in vitro:time course,in vitro model for inflammatory dendritic cells.Present expression down.Conclusion Based on the GEO database and ScanGEO,high-throughput shared data can be screened and analyzed efficiently.

关 键 词：GEO数据库 碱基切除修复 XPA 基因表达差异 

分 类 号：Q756[生物学—分子生物学] TP392[自动化与计算机技术—计算机应用技术]