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主管单位 工业和信息化部 主办单位 哈尔滨工业大学 主编 任南琪 国际刊号ISSN 1672-5565 国内刊号CN 23-1513/Q

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引用本文:刘超群,张新生,张越.hsa-miR-192-3p的靶基因预测及功能分析[J].生物信息学,2018,16(4):262-268.
LIU Chaoqun,ZHANG Xinsheng,ZHANG Yue.Prediction of hsa-miR-192-3p target gene and bioinformatics analysis[J].Chinese Journal of Bioinformatics,2018,16(4):262-268.
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hsa-miR-192-3p的靶基因预测及功能分析
刘超群,张新生 ,张越
(沈阳医学院 公共卫生学院职业卫生教研室, 沈阳 110034)
摘要:
通过生物信息学方法预测hsa-miR-192-3p的靶基因及其靶基因的可能功能。首先通过 miRbase 在线数据库对 hsa-miR-192-3p的碱基序列及序列在各物种间的保守性进行分析,再通过miRGator v3.0在线数据库查看hsa-miR-192-3p在各个组织器官中的表达丰富度情况;其次,应用TargetScan和miRanda在线数据库预测hsa-miR-192-3p的靶基因;最后,将预测得到的两个数据库的靶基因交集用DAVID在线数据库进行功能富集分析和信号转导通路富集分析。结果表明:hsa-miR-192-3p在人、家鼠、猕猴等生物中存在高度保守性;hsa-miR-192-3p在胃肠道、肾脏、肝胆系统、干细胞、鼻、脾、胸腺中表达丰富度较高;通过两个靶基因预测软件预测的靶基因取交集后共有190个;功能富集分析发现hsa-miR-192-3p靶基因富集在细胞质、细胞核、质膜、高尔基体等15个细胞组件(p<0.05),参与蛋白结合、GTP酶活性、锌离子跨膜转运蛋白活性等7个分子功能(p<0.05),涉及金属离子运输、RNA聚合酶II启动子的转录阳性调控、基因表达调节、钙离子跨膜运输、胚胎发育等18个生物过程(p<0.05);预测靶基因集合显著富集于癌症通路与催乳素信号通路中(p<0.05)。得出结论:hsa-miR-192-3p预测的靶基因集合富集于多个生物过程,与肿瘤密切相关,生物信息预测为今后的研究奠定了一定的理论基础,为后续实验验证提供了研究方向。
关键词:  hsa-miR-192-3p  信号转导通路  功能富集分析  癌症
DOI:10.12113/j.issn.1672-5565.201804001
分类号:R34
文献标识码:A
基金项目:国家自然科学基金面上项目(81070128);沈阳市“高层次创新人才计划”项目(No.RC170408);辽宁省重点研发计划(No.2018225013);沈阳医学院硕士研究生科研创新基金项目(No.Y20170609);沈阳中青年创新支持计划( No.RC180379);教育部留学启动基金(No.20121707);人力资源与社会保障部科技项目择优资助(No.2015).
Prediction of hsa-miR-192-3p target gene and bioinformatics analysis
LIU Chaoqun,ZHANG Xinsheng, ZHANG Yue
(Department of Labor Hygiene and Environmental Hygiene, School of Public Health, Shenyang Medical College, Shenyang 110034,China)
Abstract:
This paper predicts the target genes and potential functions of hsa-miR-192-3p by bioinformatics methods. Firstly, the amino acid sequence of hsa-miR-192-3p and the conservation of the sequence between species were analyzed by the miRbase online database, and the expression abundance of hsa-miR-192-3p in tissues and organs was obtained through the miRGator v3.0 online database. The target genes of hsa-miR-192-3p were then predicted by TargetScan and miRanda online database. Finally, the predicted target gene set was subjected to functional enrichment analysis and signal transduction pathway enrichment analysis using the DAVID online database. Results show that hsa-miR-192-3p was highly conserved in humans, mice, macaques, and other organisms, and it was highly expressed in gastrointestinal tract, kidney, hepatobiliary system, stem cells, nasal, spleen, and thymus. A total of 190 target genes were predicted by the two target gene prediction softwares. Functional enrichment analysis revealed that the hsa-miR-192-3p target genes were enriched in 15 cellular components(p<0.05) such as cytoplasm, nucleus, plasma membrane, and Golgi apparatus, involved in protein binding, GTPase activity, zinc ion transmembrane transporter activity, and other 7 molecular functions (p<0.05), and related to eighteen biological processes(p<0.05) including metal ion transport, transcriptional positive control of RNA polymerase II promoter, gene expression regulation, calcium transmembrane transport, embryonic development and so on. The predicted target gene set was significantly enriched in cancer and in prolactin signaling pathways(p<0.05). It can be concluded that the target gene set predicted by hsa-miR-192-3p is enriched in multiple biological processes and is closely related to tumors. Bioinformatics prediction lays a certain theoretical foundation for future research and provides experimental directions for subsequent experimental verification.
Key words:  Hsa-miR-192-3p  Signal transduction pathway  Functional enrichment analysis  Cancer

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