利用GEO数据库分析急性髓系白血病中circRNA的差异表达

[Analysis of the Differential Expression of circRNA in Acute Myeloid Leukemia by GEO Database].

作者信息

Qin Wei, Qian Si-Xuan, Cai Xiao-Hui, Lu Xu-Zhang, Chao Hong-Ying

机构信息

Department of Hematology, The Affiliated Changzhou NO.2 People's Hospital Nanjing Medical University, Changzhou 213000, Jiangsu Province, China.

Department of Hematology, Jiangsu Provincial People's Hospital (The First Affiliated Hospital of Nanjing Medical University), Nanjing 210029, Jiangsu Province, China,E-mail:

出版信息

Zhongguo Shi Yan Xue Ye Xue Za Zhi. 2021 Dec;29(6):1719-1726. doi: 10.19746/j.cnki.issn.1009-2137.2021.06.005.

DOI:10.19746/j.cnki.issn.1009-2137.2021.06.005

PMID:34893100

Abstract

OBJECTIVE

To investigate the difference expression of circular RNA (circRNA) in acute myeloid leukemia (AML) by using bioinformatics method.

METHODS

The microarray chip data of AML was searched and downloaded from the Gene Expression Omnibus (GEO) of the National Center for Bioinformatics (NCBI). The differences between AML samples and control samples were analyzed by R software. The interaction between deregulated circRNA, miRNA and mRNA were predicted by miranda software and miRTarBase software. The circRNA-miRNA-mRNA regulatory network was constructed by using the cytoHubba plugin based on the Cytoscape software.

RESULTS

A total of 203 differential expression of circRNAs were finally collected, including down-regulated 161 circRNAs and up-regulated 42 circRNAs. CircRNA/miRNA/mRNA interaction network was constructed through software prediction. hsa_circ_0001080, hsa_circ_0004511, hsa_circ_0054211, hsa_circ_0001944 may be positively regulated the gene expression in AML.

CONCLUSION

Abnormal expression of circRNA in AML may become a new target for AML treatment.

摘要

目的

运用生物信息学方法研究环状RNA（circRNA）在急性髓系白血病（AML）中的差异表达。

方法

从美国国立生物技术信息中心（NCBI）的基因表达综合数据库（GEO）中搜索并下载AML的微阵列芯片数据。利用R软件分析AML样本与对照样本之间的差异。通过miranda软件和miRTarBase软件预测差异表达的circRNA、miRNA和mRNA之间的相互作用。基于Cytoscape软件，使用cytoHubba插件构建circRNA-miRNA-mRNA调控网络。

结果

最终共收集到203个差异表达的circRNA，其中161个circRNA表达下调，42个circRNA表达上调。通过软件预测构建了circRNA/miRNA/mRNA相互作用网络。hsa_circ_0001080、hsa_circ_0004511、hsa_circ_0054211、hsa_circ_0001944可能正向调控AML中的基因表达。