口腔疾病防治 ›› 2016, Vol. 24 ›› Issue (1): 15-19.doi: 10.12016/j.issn.2096-1456.2016.01.003

所属专题: 111

• 基础研究 • 上一篇    下一篇

舌鳞癌组织长链非编码RNA的Ion Torrent高通量检测和分析

欧阳可雄1, 梁军2, 邹瑞1, 李志强3, 白植宝4, 朴正国1, 赵建江3   

  1. 1.广州医科大学口腔医学院·附属口腔医院·口腔医学重点实验室,广东 广州(510140);
    2.中山大学附属第五医院口腔科;
    3.广东省口腔医院·南方医科大学附属口腔医院;
    4.广州市第一人民医院口腔科
  • 收稿日期:2015-09-02 出版日期:2016-01-20 发布日期:2016-01-20
  • 通讯作者: 赵建江,主任医师,博士, Email:zhaojianjiang1965@hotmail.com
  • 作者简介:欧阳可雄,副主任医师,博士, Email:ouyangkexiong@hotmail.com
  • 基金资助:
    广东省科技计划项目(20120318025,2013B021800196)

Ion Torrent RNA-Seq detection and analysis of the long non-coding RNA in tongue squamous cell carcinoma

OUYANG Ke-xiong1, LIANG Jun, ZOU Rui, LI Zhi-qiang, BAI Zhi-bao, PIAO Zheng-guo, ZHAO Jian-Jiang.   

  1. Key Laboratory of Oral Medicine, School and Hospital of Stomatology, Guangzhou Medical University, Guangzhou 510140, China
  • Received:2015-09-02 Online:2016-01-20 Published:2016-01-20
  • Contact: ZHAO Jian-Jiang, Email: zhaojianjiang1965@hotmail.com, Tel: 0086-20-84436981

摘要: 目的 研究舌鳞癌组织及其癌旁组织之间长链非编码RNA(long non-coding RNA,LncRNA)表达谱的差异,探讨LncRNA在基因调控中的作用。方法 应用Ion Torrent高通量测序技术对1例新鲜舌鳞癌组织及其癌旁组织的LncRNA表达谱进行检测比较。将测出的LncRNA序列和Ensemble 6.8数据库中LncRNA的数据进行比对,用Bowtie2的方法挑出LncRNA的读序,然后用Cufflinks方法计算LncRNA每百万读序中来自某基因每千碱基长度的读序数(reads per kilo bases per million reads,RPKM)。截取癌症组织比癌旁组织RPKM值大于10和小于0.1的LncRNA作为候选目标。结果 纳入候选目标LncRNA的有52个,其中表达上调的有28个,表达下调的有24个。结论 舌鳞癌组织和癌旁组织中存在差异表达的LncRNA分子,提示其靶基因有可能成为舌鳞癌基因治疗的潜在靶点。

关键词: 长链非编码RNA; 舌鳞癌; 高通量测序

Abstract: Objective To study the difference of LncRNA expression profiles between tongue squamous cell carcinoma (TSCC) and the corresponding adjacent normal tissue. To explore the role of long non-coding RNA in gene regulation. Methods One fresh sample of TSCC tissue and the adjacent normal tongue tissue were selected. After extracting the total RNA, the LncRNA from different tissues was screened and compared by Ion Torrent RNA-Seq. Pick LncRNA read sequence by the method used Bowtie2, then calculate the reads per kilo bases per million reads, RPKM of LncRNA by the method then Cufflinks. Choose the RPKM ratio of LncRNA from Cancer and adjacent tissue as a candidate target. Results According to RNA-Seq, 52 LncRNA whose value of RPKM with a fold>10 or <0.1 compared to the adjacent normal tongue tissue was enrolled in this study, of which 28 was up-regulated expression, 24 was down-regulated expression. Conclusion LncRNA expression profiles may be an important potential targets in TSCC.

Key words: Long non-coding RNA; Tongue squamous cell carcinoma; High-throughput sequencing

中图分类号: 

  • R739.86