【目的】 利用各种生物信息学工具分析hsa-miR-378转录调控、靶基因功能,以期为研究hsa-miR-378在人脂肪细胞分化过程中的功能与调控机制提供线索。 【方法】 应用UCSC Genome Browser、Promoter scan等在线工具,分析hsa-miR-378在基因组上下游10 kb 以内的CpG 岛分布情况、转录起始位置(TSS)、转录因子结合位置(TFBS)等;选择TargetScan、PicTar、MiRanda三种计算方法预测hsa-miR-378的靶基因,取三个预测结果的交集,并合并DIANA LAB-TarBase 6.0数据库的已验证靶标,对所得靶基因集分别进行GO注释描述、GO富集分析和pathway富集分析。 【结果】 hsa-miR-378可能具有独立的启动子,可能受C/EBPβ转录因子的调控;其预测靶基因集合富集于转录调控、蛋白质修饰、细胞分化等生物学过程和功能(P<0.01);并显著富集于TGF-β信号通路、Wnt信号通路等4个信号通路,以及甲状腺癌、系统性红斑狼疮等8个疾病通路中 (P<0.05)。 【结论】 通过对hsa-miR-378转录调控元件、靶基因的分析,为hsa-miR-378在人脂肪细胞中的功能与调控机制研究提供了线索和理论依据。
Abstract
【Objective】 The bioinformatics analysis about hsa-miR-378 was performed,including transcription regulation prediction and function analysis of target genes,in order to lay foundation and provide the basis for the further studies in human preadipocytes differentiation. 【Methods】 Online tools,such as NCBI Mapviewer,UCSC Genome Browser and Promoter scan,were used for prediction of the CpG island,transcription start position (TSS),transcription factor binding sites (TFBS),etc.TargetScan,PicTar and miRanda were used to predict target genes of hsa-miR-378.The intersection of the three results and validated targets from DIANA LAB-TarBase 6.0 datebase were analyzed by gene ontology and pathway analysis. 【Results】 hsa-miR-378 might had an independent promoter with C/EBP β transcription factor binding sites.The gene ontology analysis showed the predicted target genes were enriched in transcriptional regulation,protein modification,cell differentiation and other biological processes(P<0.01).The pathway analysis showed the target genes mainly involved in 4 signaling pathways such as TGF-β signaling pathway,Wnt signaling pathway,and 8 disease pathways such as thyroid cancer,systemic lupus erythematosus(P<0.05). 【Conclusion】 The analysis about transcriptional regulatory elements and target genes of hsa-miR-378 lie the foundation for subsequent research about its function and regulatory mechanism in human preadipocytes.
关键词
miR-378 /
microRNA /
生物信息学 /
脂肪细胞分化 /
肥胖
Key words
hsa-miR-378 /
microRNA /
bioinformatics analysis /
adipocytes differentiation /
obesity
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基金
江苏省医学创新团队项目(LJ201108);江苏省自然科学基金(BK2011107);南京市科技发展计划(201104013)
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