上海交通大学学报（医学版）

上海交通大学学报（医学版） ›› 2019, Vol. 39 ›› Issue (9): 955-.doi: 10.3969/j.issn.1674-8115.2019.09.004

• 论著·基础研究 • 上一篇    下一篇

基于高通量测序对人胃癌组织长链非编码RNA差异表达的分析

余志龙，戎泽印，罗再，章建明，黄陈   

  1. 上海交通大学附属第一人民医院普通外科，上海 200080
  • 出版日期:2019-09-28 发布日期:2019-11-02
  • 通讯作者: 黄陈，电子信箱：richard-hc@hotmail.com。
  • 作者简介:余志龙（1991—），男，硕士生；电子信箱： yuzhilong2013@163.com。
  • 基金资助:
    国家自然科学基金（817725276）；上海市教育委员会高峰高原学科建设计划（20161425）；上海交通大学医工交叉基金（YG2017MS28）

Identification of differentially expressed lncRNA in human gastric cancer tissues based on high-throughput RNA sequencing

YU Zhi-long, RONG Ze-yin, LUO Zai, ZHANG Jian-ming, HUANG Chen   

  1. Department of General Surgery, Shanghai General Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200080, China
  • Online:2019-09-28 Published:2019-11-02
  • Supported by:
    National Natural Science Foundation of China, 817725276; Shanghai Municipal Education Commission—Gaofeng Clinical Medicine Support, 20161425; Medical Engineering Cross Research Foundation of Shanghai Jiao Tong University, YG2017MS28）。

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摘要： 目的 ·为了探究胃癌的潜在机制，通过基因芯片技术对 3对胃癌新鲜组织及其邻近的正常组织进行了长链非编码 RNA（lncRNA）和 mRNA表达谱分析。方法 ·通过基因本体（ GO）注释分析及京都基因和基因组百科全书（ KEGG）通路富集分析，对差异表达的 lncRNA和 mRNA进行功能注释。此外，使用 MATLAB 2012b和 Cytoscape软件的超几何累积分布函数找到与其相应 mRNA的相关性，构建共表达网络。进一步使用定量反转录聚合酶链反应（ qRT-PCR）在 30对胃癌新鲜组织中验证筛选的 5种关键 lncRNA的差异表达。结果 ·与正常癌旁组织相比，胃癌组织中发现异常表达的 1 499个 lncRNA和 6 002个 mRNA。qRT-PCR结果显示 5个关键 lncRNA与基因芯片数据相一致。此外，顺式调控基因分析显示了这些关键 lncRNA的染色体定位，揭示了与其相关的共表达基因。反式分析结果表明，有许多转录因子参与调节 lncRNA和基因表达。结论 ·这些胃癌组织中差异表达的 lncRNA可能作为新型的生物标志物，并为胃癌靶向治疗提供有价值的信息。

关键词: 胃癌, 长链非编码 RNA, 基因芯片

Abstract:

Objective · To explore the potential mechanisms of gastric cancer (GC), long noncoding RNA (lncRNA) and mRNA profiling of 3 paired GC fresh tissues and their matched adjacent non-cancerous tissues was detected through microarray analysis. Methods · The functions of differentially expressed lncRNA and mRNA were recognizedgene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses. The co- network was constructed to find the relevance with corresponding mRNAusing hypergeometric cumulative distribution function of MATLAB 2012b and Cytoscape software. Quantitative reverse transcription polymerase chain reaction (qRT-PCR) was used to detect the of 5 differentially expressed key lncRNAs, which were selected in 30 paired GC fresh tissues. Results · Compared with normal tissues, 1 499 lncRNAs and 6 002 mRNAs were dysregulated in GC tissues. The qRT-PCR results showed that the 5 key lncRNAs were consistent with those the microarray data. Cis-regulatory gene analyses showed the chromosome location of these key lncRNAs, and revealed the associated co-expressed genes. The trans-analyses results demonstrated that enormous transcription factors regulated lncRNA and gene . Conclusion · These differentially expressed lncRNAs in GC may be promising biomarkers and provide valuable information for GC targeted treatment.

Key words: gastric cancer, long noncoding RNA, microarray

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