利用转录组测序数据分析胃癌长链非编码RNA的研究#br#

	#br#

临床肿瘤学杂志 ›› 2017, Vol. 22 ›› Issue (12): 1116-1120.

利用转录组测序数据分析胃癌长链非编码RNA的研究#br#
#br#

10006南京南京医科大学附属南京医院南京市第一医院消化内科

收稿日期:2017-06-07 修回日期:2017-10-12 出版日期:2017-12-31 发布日期:2018-06-21

Analysis of long noncoding RNAs in gastric cancer using RNASeq data

Department of Gastroenterology，Nanjing First Hospital，Nanjing Medical University

Received:2017-06-07 Revised:2017-10-12 Online:2017-12-31 Published:2018-06-21

摘要/Abstract

摘要： 目的检测长链非编码RNA（lncRNA）在胃癌中的表达，并初步分析其功能。方法 34对胃癌及癌旁正常组织的转录组测序数据从癌症基因组图谱计划（TCGA）网站下载获得。用Subread和featureCounts分析数据，获得mRNA和lncRNA的表达值。用edgeR分析获得差异表达lncRNA和与差异表达lncRNA共表达的mRNA，并作基因本体论（GO）和京都基因与基因组百科全书（KEGG）分析。结果在胃癌组织和癌旁正常组织中差异表达的lncRNA有1345个，其中在胃癌组织中表达上调758个，下调587个。共表达分析显示，1045个编码基因与lncRNA表达相关。与差异表达lncRNA共表达的mRNA涉及的GO生物学过程包括有丝分裂期、细胞分裂、DNA复制等，涉及的KEGG通路包括细胞周期、细胞粘附分子等。结论 lncRNA在胃癌和癌旁正常组织中的表达有显著差异，提示其在胃癌的发生、发展中起重要作用。

关键词: 胃癌, 长链非编码RNA（lncRNA）, 转录组测序

Abstract: ObjectiveTo detect the expression of long noncoding RNAs （lncRNAs） in gastric cancer and analyze its function. MethodsRNASeq data of 34 paired gastric cancer and normal adjacent tissues were downloaded from the website of the Cancer Genome Atlas （TCGA）. Subread and featureCounts were used to analyze the data. The expression of mRNAs and lncRNAs was obtained. EdgeR was utilized to identify the differentially expressed lncRNAs between gastric cancer and normal adjacent tissues. The mRNAs coexpressed with the differentially expressed lncRNAs were identified and subjected to Gene Ontology （GO） and Kyoto Encyclopedia of Genes and Genomes （KEGG） analysis. ResultsOne thousand three hundred and fortyfive lncRNAs were differentially expressed between gastric cancer and normal adjacent tissues. Among these lncRNAs， 758 lncRNAs were upregulated and 587 lncRNAs were downregulated in gastric cancer. Coexpression analysis showed that 1045 coding genes were correlated with lncRNAs. The GO biological process terms associated with coexpressed mRNAs included mitotic nuclear division， cell division， DNA replication， etc. The KEGG pathways involved cell cycle， cell adhesion molecules， etc. ConclusionThe expression of lncRNAs in gastric cancer changes significantly compared with normal adjacent tissues， suggesting lncRNAs may play important roles in development and progression of gastric cancer.

Key words: Gastric cancer, Long noncoding RNA（lncRNA）, RNASeq

曹伟军, 谈路轩, 李超, 韩维维, 张军, 张振玉. 利用转录组测序数据分析胃癌长链非编码RNA的研究#br#

#br#

[J]. 临床肿瘤学杂志, 2017, 22(12): 1116-1120.

CAO Weijun, TAN Luxuan, LI Chao, HAN Weiwei, ZHANG Jun, ZHANG Zhenyu. . Analysis of long noncoding RNAs in gastric cancer using RNASeq data[J]. Chinese Clinical Oncology, 2017, 22(12): 1116-1120.

参考文献

Metrics

Viewed

Full text

Abstract

Cited

Shared

Discussed

本文评价

推荐阅读 6

[1]	薛世民1，贾娟1，沈华2. 非小细胞肺癌组织中lncRNA HOTAIR的表达及临床意义[J]. 临床肿瘤学杂志, 2016, 21(9): 780 .
[2]	郑志刚，韩军，廖继红. 小细胞肺癌组织中lncRNA MEG3的表达及其与预后关系的研究[J]. 临床肿瘤学杂志, 2017, 22(1): 17 .
[3]	樊卫民1，许鹏飞2，付子毅3，陈云1. C17orf76-AS1在卵巢上皮癌中的表达及其对卵巢上皮癌细胞SKOV3生物学功能的影响[J]. 临床肿瘤学杂志, 2017, 22(6): 500 .
[4]	冯丽萍，余盈，李跃 . LncRNA RAB11B-AS1在胃癌组织中的表达及临床意义[J]. 临床肿瘤学杂志, 2017, 22(7): 592 .
[5]	梁文昌, 郭荣平, 王俊生, 周静. EPO和EPOR在肝细胞癌中的表达及临床意义 [J]. 临床肿瘤学杂志, 2018, 23(5): 397 -402 .
[6]	陈洽铭, 葛莹莹, 陈昭宇, 王怀明. 长链非编码RNA SNHG5在肝癌中表达及其对HepG2细胞增殖、凋亡的影响[J]. 临床肿瘤学杂志, 2018, 23(5): 403 -407 .