Song Bin, Du Juan, Feng Ye, Gao Yong-Jian, Zhao Ji-Sheng
Department of Gastrointestinal Surgery, China-Japan Union Hospital, Jilin University, Changchun, Jilin 130033, P.R. China.
Department of Medical Oncology, The Tumor Hospital of Jilin, Changchun, Jilin 130033, P.R. China.
Exp Ther Med. 2016 Oct;12(4):2455-2468. doi: 10.3892/etm.2016.3648. Epub 2016 Sep 1.
The aim of the present study was to investigate the mechanisms of long non-coding RNAs (lncRNAs) in a gastric cancer cell line treated with celecoxib. The human gastric carcinoma cell line NCI-N87 was treated with 15 µM celecoxib for 72 h (celecoxib group) and an equal volume of dimethylsulfoxide (control group), respectively. Libraries were constructed by NEBNext Ultra RNA Library Prep kit for Illumina. Paired-end RNA sequencing reads were aligned to a human hg19 reference genome using TopHat2. Differentially expressed genes (DEGs) and lncRNAs were identified using Cuffdiff. Enrichment analysis was performed using GO-function package and KEGG profile in Bioconductor. A protein-protein interaction network was constructed using STRING database and module analysis was performed using ClusterONE plugin of Cytoscape. , , , , , , and were enriched in the oxidative phosphorylation pathway. , , and were enriched in the chemokine signaling and cytokine-cytokine receptor interaction pathways. , , , , and were enriched in the integrin-mediated signaling pathway. DEGs co-expressed with lnc-SCD-1:13, lnc-LRR1-1:2, lnc-PTMS-1:3, lnc-S100P-3:1, lnc-AP000974.1-1:1 and lnc-RAB3IL1-2:1 were enriched in the pathways associated with cancer, such as the basal cell carcinoma pathway in cancer. In conclusion, these DEGs and differentially expressed lncRNAs may be important in the celecoxib treatment of gastric cancer.
本研究的目的是探究塞来昔布处理的胃癌细胞系中长链非编码RNA（lncRNA）的作用机制。分别用15µM塞来昔布处理人胃癌细胞系NCI-N87 72小时（塞来昔布组）和等体积的二甲基亚砜（对照组）。使用NEBNext Ultra RNA Library Prep试剂盒（用于Illumina）构建文库。使用TopHat2将双末端RNA测序读数比对到人类hg19参考基因组。使用Cuffdiff鉴定差异表达基因（DEG）和lncRNA。使用Bioconductor中的GO功能包和KEGG图谱进行富集分析。使用STRING数据库构建蛋白质-蛋白质相互作用网络，并使用Cytoscape的ClusterONE插件进行模块分析。 、 、 、 、 、 和 在氧化磷酸化途径中富集。 、 、 和 在趋化因子信号传导和细胞因子-细胞因子受体相互作用途径中富集。 、 、 、 、 和 在整合素介导的信号传导途径中富集。与lnc-SCD-1:13、lnc-LRR1-1:2、lnc-PTMS-1:3、lnc-S100P-3:1、lnc-AP000974.1-1:1和lnc-RAB3IL1-2:1共表达的DEG在与癌症相关的途径中富集，如癌症中的基底细胞癌途径。总之，这些DEG和差异表达的lncRNA可能在塞来昔布治疗胃癌中起重要作用。
