结直肠癌中具有高甲基化的长链非编码RNA基因的鉴定与功能注释
Identification and functional annotation of lncRNA genes with hypermethylation in colorectal cancer.
作者信息
Liao Qi, He Weiling, Liu Jianfa, Cen Yi, Luo Liang, Yu Chengliang, Li Yang, Chen Sitong, Duan Shiwei
机构信息
Department of Prevention Medicine, School of Medicine, Ningbo University, Ningbo, Zhejiang, 315211, China.
Gastrointestinal Surgery Center, The First Affiliated Hospital, Sun Yat-Sen University, Guangzhou, Guangdong 510080, China.
出版信息
Gene. 2015 Nov 10;572(2):259-65. doi: 10.1016/j.gene.2015.07.028. Epub 2015 Jul 11.
Colorectal cancer (CRC) is one of the leading causes of mortality worldwide. DNA methylation is an important epigenetic modification for CRC. Although currently a number of studies about DNA methylation of protein coding genes have been carried out, only a few are about the methylation of genes encoding the long noncoding RNAs (lncRNAs). In this study, we identified 761 lncRNA genes with DNA hypermethylation in CRC using a free MethylCap-seq dataset. Integration of lncRNA expression and methylation datasets showed that the expression of lncRNAs is negatively correlated with DNA methylation (p<0.01). Co-methylation network was also constructed to annotate the functions of unknown lncRNAs. Our results showed that a total of 364 lncRNAs were annotated with at least one GO biological process term. The current data-mining work is likely to provide informative clues for biological researchers to further understand the role of lncRNAs in the development of CRC.
结直肠癌（CRC）是全球主要的死亡原因之一。DNA甲基化是CRC重要的表观遗传修饰。尽管目前已经开展了许多关于蛋白质编码基因DNA甲基化的研究，但关于长链非编码RNA（lncRNA）编码基因甲基化的研究却很少。在本研究中，我们使用一个免费的甲基化捕获测序（MethylCap-seq）数据集，在CRC中鉴定出761个发生DNA高甲基化的lncRNA基因。lncRNA表达和甲基化数据集的整合显示，lncRNA的表达与DNA甲基化呈负相关（p<0.01）。还构建了共甲基化网络以注释未知lncRNA的功能。我们的结果表明，共有364个lncRNA至少被一个基因本体（GO）生物学过程术语注释。当前的数据挖掘工作可能为生物学研究人员进一步了解lncRNA在CRC发生发展中的作用提供有益线索。
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