山东医药2017，Vol.57Issue(20)：5-8,前插1,5.DOI:10.3969/j.issn.1002-266X.2017.20.002
膀胱癌相关lncRNA及其共表达mRNA的初步筛选与功能预测
Preliminary screening and functional prediction of long non-coding RNA and its co-expression mRNA in bladder carcinoma
摘要
Abstract
Objective To screen out differentially expressed long non-coding RNAs (lncRNAs) and co-expression mRNAs and to perform the preliminary validation and functional prediction in bladder carcinoma.Methods Four pairs of carcinoma and para-carcinoma tissues were used for microarray assay to screen out the differentially expressed lncRNAs and co-expression mRNAs.Hierarchical clustering was performed to show lncRNA and mRNA expression patterns among samples.Five lncRNAs (RP11-359E19.2, AL928768.3, AC002519.6, RP11-79H23.3, AK021804) and four co-expression mRNAs (HRAS, VEGFA, ITGB1, DNMT3B) were chosen for verification of the microarray results by quantitative real-time PCR.Gene Ontology (GO) and KEGG pathway were used to analyze the biological function of co-expression mRNA.Results A total of 4 155 lncRNAs and 4 416 co-expression mRNAs were detected to be differentially expressed, among which, 2 045 lncRNAs were up-regulated and and 2 110 were down-regulated, meanwhile, 2 472 co-expression mRNAs were up-regulated and and 1944 were down-regulated, respectively.Totally 345 lncRNAs displayed fold change ≥10, including 127 up-regulated lncRNAs and 218 down-regulated lncRNAs.RP11-436F21.1 and H19 were the most up-regulated lncRNAs.Overview of coding gene profile showed that 75 mRNAs had fold change ≥10 (up: 57;down: 18).Comapred with the para-carcinoma tissues, the expression of RP11-359E19.2 in 5 lncRNAs was up-regulated, whereas AL928768.3, AC002519.6, RP11-79H23.3, and AK021804 expression was down-regulated in the bladder carcinoma tissues (all P<0.05).Meanwhile, the expression of HRAS, VEGFA, ITGB1, and DNMT3B in four co-expression mRNAs was all up-regulated (all P<0.05).The result was consistent with the microarray assay.GO assay showed that the up-regulated co-expression mRNAs mainly participate in the biological processes, such as cellular metabolic and mitotic cell cycle.Meanwhile, the down-regulated co-expression mRNAs mainly participate in the immune system process of stimulus response and immune response.KEGG pathway assay showed that 10 pathways were associated with the up-regulated or down-regulated mRNAs.Among the co-expression mRNAs, the enrichment of P53 signal pathway and bladder cancer was the highest, whereas in the down-regulated co-expression mRNAs, the cytokine-factor receptor interaction was the highest.Conclusions The differentially expressed LncRNAs and co-expression mRNAs are found and screened out in the bladder cancer.The specially expressed lncRNAs and and mRNAs could play important roles in the pathogenesis and development of bladder carcinoma, which might be new markers of bladder cancer.关键词
膀胱癌/长链非编码RNA/lncRNA芯片/信息学分析Key words
bladder carcinoma/long non-coding RNA/LncRNA chip/informatics analysis分类
医药卫生引用本文复制引用
舒静,黄梦鸽,田强,姜源,陈俊霞..膀胱癌相关lncRNA及其共表达mRNA的初步筛选与功能预测[J].山东医药,2017,57(20):5-8,前插1,5.基金项目
国家自然科学基金资助项目(81672536). （81672536）
