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. 2018 Jun 20;21(6):470-475.
doi: 10.3779/j.issn.1009-3419.2018.06.08.

[Bioinformatics Analysis of DNA Methylation in the Promoters of LincRNA in Lung Adenocarcinoma]

[Article in Chinese]
Wen Zhang #  1 , Shaojun Li #  1 , Nannan Guo  1 , Yingnan Zhao  1
Affiliations

[Bioinformatics Analysis of DNA Methylation in the Promoters of LincRNA in Lung Adenocarcinoma]

[Article in Chinese]
Wen Zhang et al. Zhongguo Fei Ai Za Zhi. .

Abstract
in English, Chinese

Background: Previous studies have found the lincRNAs play important roles in the occurrence and development of lung adenocarcinoma, but their regulated mechanims are still unclear. The aim of this study is to evaluate the relationship between DNA methylation and lincRNA expression, and the effect of prognosis in lung adenocarcinoma.

Methods: The whole genome Illumina Methylation 450 DNA methylatiuon data and RNAseq for lung adenocarcinoma were download from TCGA. DNA methylation around lincRNA and their relationship to gene expression were analyzed. Their contribution to lung adenocarcinoma were further analyzed by comparing DNA methylation and lincRNA expression in tumor and adjacent tissues.

Results: The methylation level in promoter region was lower than other positions in lincRNA, and was negatively correlated with gene expression. There were 427 lincRNA genes showed differential DNA methylation in their promoter regions in tumor and adjacent tissues. Among these, 15 lincRNA genes showed differential gene expression and negatively correlated with DNA methylation, including FENDRR (a tumor progression and metastasis gene) whose high methylation in its promoter showed poor survival in lung adenocarcinoma.

Conclusions: The expression of lincRNA can be regulated by DNA methylation in their promoter regions, and the level of DNA methylation is related to patient prognosis in lung adenocarcinoma.

【中文题目：肺腺癌长链非编码RNA启动子DNA甲基化的生物信息学分析】 【中文摘要：背景与目的 肿瘤相关长链非编码RNA（lincRNA）的异常表达影响癌症的进程，是肿瘤进展机制研究的热点，然而其调控机制目前并不清楚。本研究通过生物信息学方法研究肺腺癌lincRNA启动子DNA甲基化水平与基因表达和预后的关系。方法 从TCGA网站下载肺腺癌Illumina Methylation 450K芯片的全基因组DNA甲基化数据及转录组数据，分析DNA甲基化在lincRNA基因附近的分布情况及与基因表达的关系；比较肿瘤组织和癌旁组织DNA甲基化和表达变化。结果 lincRNA启动子附近DNA甲基化水平较低，且与基因的表达水平呈负相关。在肿瘤组织和癌旁组织间，15个lincRNA的DNA甲基化水平存在显著差异，与其表达呈反向变化，包括与癌症发生发展相关的FINDER基因，该基因启动子高甲基化的肺腺癌病人预后较差，与基因表达作用刚好相反。结论 肺腺癌中一些lincRNA启动子的DNA甲基化水平能调控lincRNA的表达，进而与肺腺癌的预后有关。 】 【中文关键词：肺腺癌；LincRNA；DNA甲基化；预后】.

Keywords: DNA methylation; LincRNA; Lung adenocarcinoma; Prognosis.

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Figures

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lincRNA基因周围DNA甲基化分布分析。A:lincRNA基因和蛋白基因周围DNA甲基化分布; B:不同表达水平的lincRNA基因DNA甲基化分布。 Distribution of DNA methylation around lincRNA.A:Distribution of DNA methylation around lincRNAs and proteins; B:Distribution of DNA methylation in lincRNAs with different expression levels.
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肿瘤组织和癌旁组织lincRNA基因启动子DNA甲基化聚类分析 Heatmap analysis of DNA methylation in promoter region of lincRNA in tumor and adjacent tissues
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肿瘤组织和癌旁组织lincRNA基因启动子DNA甲基化变化与基因表达变化关系 Comparative analysis of DNA methylation in the promoter region of lincRNA and its contribution to gene expression between tumor and adjacent tissues
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lincRNA基因启动子DNA甲基化和基因表达水平与肺腺癌患者的生存时间关系。A:DNA甲基化; B:基因表达。 Survival analysis of patients with different methylation levels in lung adenocarcinoma.A:DNA methylation; B:Gene expression.
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References

    1. Sun S, Schiller JH, Gazdar AF. Lung cancer in never smokers--a different disease. Nat Rev Cancer. 2007;7(10):778–790. doi: 10.1186/s40880-017-0187-6. - DOI - PubMed
    1. Dias M, Linhas R, Campainha S, et al. Lung cancer in never-smokers-what are the differences? Acta Oncol. 2017;56(7):931–935. doi: 10.1080/0284186X.2017.1287944. - DOI - PubMed
    1. Anastasiadou E, Jacob LS, Slack FJ. Non-coding RNA networks in cancer. Nat Rev Cancer. 2018;18(1):5–18. doi: 10.1038/nrc.2017.99. - DOI - PMC - PubMed
    1. Peng WX, Koirala P, Mo YY. LncRNA-mediated regulation of cell signaling in cancer. Oncogene. 2017;36(41):5661–5667. doi: 10.1038/onc.2017.184. - DOI - PMC - PubMed
    1. Nowicki-Osuch K, Li Y, Challinor M, et al. EINCR1 is an EGF inducible lincRNA overexpressed in lung adenocarcinomas. PLoS One. 2017;12(7):e0181902. doi: 10.1371/journal.pone.0181902. - DOI - PMC - PubMed

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