癌症相关microRNA与靶基因的生物信息学分析

doi:10.16288/j.yczz.14-439

遗传 ›› 2015, Vol. 37 ›› Issue (9): 855-864.doi: 10.16288/j.yczz.14-439

癌症相关microRNA与靶基因的生物信息学分析

周学¹, 杜宜兰², 金萍³, 马飞³

1. 南京师范大学泰州学院化学与生物工程学院,泰州 225300;
2. 第三军医大学大坪医院健康管理科,重庆 400042;
3. 南京师范大学生命科学学院,南京 210046

收稿日期:2015-03-22 修回日期:2015-07-06 出版日期:2015-09-20 发布日期:2015-09-20
通讯作者: 马飞,博士,教授,研究方向：比较基因组学与生物信息学。E-mail: mafei01@tsinghua.org.cn
作者简介:周学,博士,讲师,专业方向：非编码RNA。E-mail:zhousuxia88@126.com
基金资助:
南京师范大学泰州学院青年项目(编号：Q201206)资助

Bioinformatic analysis of cancer-related microRNAs and their target genes

Xue Zhou¹, Yilan Du², Ping Jin³, Fei Ma³

1. School of Chemistry and Biological Engineering, Nanjing Normal University Taizhou College, Taizhou 225300, China;
2. Health Management Department of Daping Hospital, Third Military Medical University, Chongqing 400042,China;
3. College of Life Science, Nanjing Normal University, Nanjing 210046, China

Received:2015-03-22 Revised:2015-07-06 Online:2015-09-20 Published:2015-09-20

摘要/Abstract

摘要： MicroRNAs(miRNAs)是一类长度约为22nt的内源性非编码RNA,通过与靶基因转录本互补结合调控基因的表达。近年来,研究发现miRNA与癌症发生密切相关,miRNA可以直接充当癌基因或者抑癌基因而影响肿瘤的发生和生长。为更进一步揭示癌症相关miRNA的特征及靶基因的功能,文章通过数据库搜索及文献检索,在人类基因组中发现了475个癌症相关miRNA,系统地比较了癌症相关miRNA与非癌症miRNA以及基因内和基因间区癌症相关miRNA在保守性、SNP位点分布、癌谱及转录调控等特性。研究发现,癌症相关miRNA比非癌症miRNA保守性要强,发生SNP概率比较低,同时发现miRNA所涉及癌症数目与保守性成正相关。基因组定位分析发现,癌症相关miRNA比非癌症miRNA更倾向于成簇存在。进一步对宿主基因、癌症相关miRNA及作用的靶基因与癌症发生进行关联分析,发现一些非癌症miRNA的宿主基因倾向于被癌症miRNA作用。本研究结果为深入理解miRNA与癌症之间的关系,以及进一步为miRNA作为癌症诊断指示物提供理论依据。

关键词: MicroRNAs(miRNAs), 癌症, 靶基因, 宿主基因, 生物信息学

Abstract: MicroRNAs (miRNAs) are a class of ～22 nucleotide endogenous noncoding RNAs which regulate gene expression by targeting complementary transcripts. Recent studies have found that miRNAs are closely related to tumorigenesis and can act as oncogenes or tumor suppressor genes to influence the occurrence and development of tumor. To further reveal characteristics of cancer-related miRNAs and the functions of miRNA targets, we obtained 475 miRNAs involved in cancer through database searching and information retrieval. We systematically analyzed and compared the features including conservation, SNP distribution, cancer spectrum width, and transcriptional regulation between cancer and non-cancer related miRNAs as well as between intergenic and intragenic miRNAs. Our results showed that cancer-related miRNAs have higher conservation and lower SNP frequency compared to non-cancer-related miRNAs, and the cancer spectrum of one miRNA is positively correlated with its conservation. Genome analysis showed that cancer-related miRNAs tend to present as clusters compared with non-cancer-related miRNAs. Further association analysis between cancer progression and host genes, cancer-related miRNAs or target genes found that the host genes of some non-cancer related miRNAs tend to be targeted by cancer-related miRNAs. This study provides theoretical basis for further understanding the relationship between miRNA and cancer progression as well as the miRNA-based cancer diagnosis.

Key words: microRNAs (miRNAs), cancer, target gene, host gene, bioinformatics

周学, 杜宜兰, 金萍, 马飞. 癌症相关microRNA与靶基因的生物信息学分析[J]. 遗传, 2015, 37(9): 855-864.

Xue Zhou, Yilan Du, Ping Jin, Fei Ma. Bioinformatic analysis of cancer-related microRNAs and their target genes[J]. HEREDITAS(Beijing), 2015, 37(9): 855-864.

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癌症相关microRNA与靶基因的生物信息学分析

Bioinformatic analysis of cancer-related microRNAs and their target genes

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