Common and differentially expressed long noncoding RNAs for the characterization of high and low grade bladder cancer.
Common and differentially expressed long noncoding RNAs for the characterization of high and low grade bladder cancer.
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DOI：
10.1016/j.gene.2016.07.042
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发表时间：
2016-10
期刊：
影响因子：
3.5
通讯作者：
Miao Wang;Xing-yuan Xiao;Fuqing Zeng;Fei Xie;Yebin Fan;Chao Huang;Guosong Jiang;Liang Wang
中科院分区：
文献类型：
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作者：
Miao Wang;Xing-yuan Xiao;Fuqing Zeng;Fei Xie;Yebin Fan;Chao Huang;Guosong Jiang;Liang Wang
我们的研究旨在探索与膀胱癌发生发展有关的长非编码RNA(LncRNAs)，以及识别更多具有低级别和高级别膀胱癌特征的关键基因和LncRNAs。GSE55433基因芯片数据来源于基因表达总库，包括57例尿路上皮癌标本(23例低度恶性NMI、14例高度恶性NMI和20例浸润性肿瘤)和26例正常对照。将差异表达基因(Deg)和差异表达的lncRNAs分成3组(低度恶性组、高度恶性组和侵袭性正常组)。对不同组别的DEG进行功能富集度分析。此外，基于每组中的公共DEG和剩余DEG构建蛋白质-蛋白质相互作用(PPI)网络。共表达分析用于鉴定共表达的DEG-lncRNAs对。从3组中分别鉴定出不同数目的差异表达基因，其中NONHSAG013805(下调)和NONHSAG009271(下调)是常见的LncRNAs，NONHSAG013805与下调基因EIF3E连接，NONHSAG009271与MYL12A连锁(下调)。此外，NONHSAG034203与ADM5在低度恶性膀胱癌中表达上调，而NONHSAG045391下调与DEGsDAD1、STUB1在高度恶性NMI癌和浸润性膀胱癌中表达下调有关。我们的研究表明，NONHSAG013805和NONHSAG009271可能分别通过EIF3E和MYL12A在膀胱癌的表达中起关键作用。此外，NONHSAG034203可能参与了低度恶性NMI膀胱癌ADM5的发生，而NONHSAG045391可能参与了高度恶性NMI和侵袭性膀胱癌DAD1和STUB1的发生。
Our study aimed to explore long non-coding RNAs (lncRNAs) contributing to the development of bladder cancer, as well as to identify more critical DEGs and lncRNAs that would characterize low- and high-grade bladder cancer. The microarray data of GSE55433 was downloaded from Gene Expression Omnibus database, including 57 urothelial cancer samples (23 low-grade NMI, 14 high-grade NMI and 20 invasive tumors) and 26 normal controls. The differentially expressed genes (DEGs) and differentially expressed lncRNAs were identified in 3 groups (low-grade NMIvs.normal, high-grade NMIvs.normal and invasive UCvs.normal). Functional enrichment analysis was performed upon the DEGs in different groups. Besides, protein-protein interaction (PPI) network was constructed based on common DEGs and remaining DEGs in each group. Co-expression analysis was performed to identify the co-expressed DEG-lncRNAs pairs. Different number of DEGs and differentially expressed lncRNAs were respectively identified from those 3 groups.NONHSAG013805(down-regulated) andNONHSAG009271(down-regulated) were common lncRNAs.NONHSAG013805was connected with the down-regulated gene EIF3E andNONHSAG009271was linked toMYL12A(down-regulated). Moreover,NONHSAG034203(up-regulated) was co-expressed withADM5(up-regulated) in low-grade NMI cancer, while the down-regulatedNONHSAG045391was connected with the down-regulated DEGsDAD1andSTUB1in high-grade NMI cancer and invasive bladder cancer. Our study indicates thatNONHSAG013805andNONHSAG009271may play key roles in bladder cancerviaco-expressing withEIF3EandMYL12A, respectively. Moreover,NONHSAG034203may be involved in low-grade NMI bladder cancerviatargetingADM5, whileNONHSAG045391may contribute to high-grade NMI and invasive bladder cancerviatargetingDAD1andSTUB1.