Genome-wide analysis of long noncoding RNA expression profile in papillary thyroid carcinoma
Genome-wide analysis of long noncoding RNA expression profile in papillary thyroid carcinoma
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甲状腺乳头状癌长非编码 RNA 表达谱的全基因组分析
DOI：
10.1016/j.gene.2015.05.046
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发表时间：
2015-09-10
期刊：
影响因子：
3.5
通讯作者：
Zhang, Dalin
中科院分区：
文献类型：
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作者：
Lan, Xiabin;Zhang, Hao;Zhang, Dalin
长链非编码RNA（longnoncodingRNA，lncRNA）已被证实在肿瘤生物学中发挥重要作用。为了了解它们在甲状腺乳头状癌（FTC）中的表达谱和潜在功能，我们利用基因芯片研究了FTC和配对的癌旁甲状腺组织中lncRNA和mRNA的表达。采用定量真实的时间聚合酶链反应（qRT-PCR）验证10个差异表达的lncRNA。基因本体论（GO）分析和途径分析也被用来研究基因的功能。根据两种独立的算法预测lncRNA的潜在靶基因。微阵列揭示了PTC中相对于非癌甲状腺组织的数千种显著差异表达的lncRNA和mRNA。qRT-PCR的结果与微阵列的结果一致，所有10种lncRNA均以相同的趋势（上调或下调）差异表达（P < 0.05）。在差异表达的mRNA中鉴定了显著富集的GO术语和途径。其中许多通路与癌症相关，如“p53信号通路”（与25个基因相关）、“癌症通路”（与75个基因相关）、“MAPK信号通路”（与50个基因相关）和“PPAR信号通路”（与16个基因相关）。发现1805个失调的lncRNA具有顺式或反式靶基因。在FTC的发生发展过程中，有463个顺式靶基因表达差异，可能受lncRNA的调控。本研究首次在全基因组范围内筛选并分析了PTC中lncRNA的表达谱，为进一步研究PTC相关lncRNA奠定了基础。(C)2015 Elsevier B. V.版权所有。
Long noncoding RNAs (lncRNAs) have been proved to play important roles in cancer biology. To understand their expression profile and potential functions in papillary thyroid carcinoma (FTC), we investigated the lncRNA and mRNA expression in FTC and paired adjacent noncancerous thyroid tissue using microarray. Quantitative real time polymerase chain reaction (qRT-PCR) was used to validate 10 differentially expressed lncRNAs. Gene ontology (GO) analysis and pathway analysis were also used to investigate the gene function. Potential target genes of lncRNAs were predicted according to two independent algorithms. The microarray revealed thousands of significantly differentially expressed lncRNAs and mRNAs in PTC relative to noncancerous thyroid tissue. The results of qRT-PCR were consistent with those of the microarray, in that all 10 lncRNAs were differentially expressed with the same trend (up- or down-regulated) (P < 0.05). Significantly enriched GO terms and pathways among differentially expressed mRNAs were identified. Many of these pathways were linked to cancer, such as "p53 signaling pathway" (associated with 25 genes), "pathways in cancer" (associated with 75 genes), "MAPK signaling pathway" (associated with 50 genes) and "PPAR signaling pathway" (associated with 16 genes). 1805 dysregulated lncRNAs were found to have cis or trans target genes. 463 of the cis target genes were found to be differentially expressed and might be regulated by lncRNAs in the tumorigenesis of FTC. Our study provides a genome-wide screening and analysis of lncRNA expression profile in PTC for the first time and lays the foundation for further investigation of lncRNAs related to PTC. (C) 2015 Elsevier B.V. All rights reserved.