Kang Lin, Liu Xiaoqiao, Gong Zhoulin, Zheng Hancheng, Wang Jun, Li Yingrui, Yang Huanming, Hardwick James, Dai Hongyue, Poon Ronnie T P, Lee Nikki P, Mao Mao, Peng Zhiyu, Chen Ronghua
BGI-Shenzhen, Shenzhen, China.
Scientific Informatics, MSD R&D (China), Beijing, China.
Genomics. 2015 Feb;105(2):76-82. doi: 10.1016/j.ygeno.2014.11.005. Epub 2014 Nov 25.
We did whole-transcriptome sequencing and whole-genome sequencing on nine pairs of Hepatocellular carcinoma (HCC) tumors and matched adjacent tissues to identify RNA editing events. We identified mean 26,982 editing sites with mean 89.5% canonical A→G edits in each sample using an improved bioinformatics pipeline. The editing rate was significantly higher in tumors than adjacent normal tissues. Comparing the difference between tumor and normal tissues of each patient, we found 7 non-synonymous tissue specific editing events including 4 tumor-specific edits and 3 normal-specific edits in the coding region, as well as 292 edits varying in editing degree. The significant expression changes of 150 genes associated with RNA editing were found in tumors, with 3 of the 4 most significant genes being cancer related. Our results show that editing might be related to higher gene expression. These findings indicate that RNA editing modification may play an important role in the development of HCC.
我们对9对肝细胞癌（HCC）肿瘤及其匹配的癌旁组织进行了全转录组测序和全基因组测序，以识别RNA编辑事件。我们使用改进的生物信息学流程，在每个样本中平均鉴定出26,982个编辑位点，其中平均89.5%为典型的A→G编辑。肿瘤中的编辑率显著高于癌旁正常组织。比较每位患者肿瘤组织和正常组织之间的差异，我们在编码区发现了7个非同义组织特异性编辑事件，包括4个肿瘤特异性编辑和3个正常组织特异性编辑，以及292个编辑程度不同的编辑。在肿瘤中发现了150个与RNA编辑相关的基因的显著表达变化，其中4个最显著的基因中有3个与癌症相关。我们的结果表明，编辑可能与更高的基因表达有关。这些发现表明，RNA编辑修饰可能在HCC的发生发展中起重要作用。
