期刊
GENOME BIOLOGY
卷 15, 期 12, 页码 -出版社
BIOMED CENTRAL LTD
DOI: 10.1186/s13059-014-0533-9
关键词
-
资金
- National High Technology Research and Development Program of China (863 Program) [2012AA02A201, 2012AA02A205]
- Chinese National Key Program on Basic Research (973 Program) [2010CB529206, 2014CB965002]
- National Natural Science Foundation of China [81272306]
- Program of Shanghai Subject Chief Scientist [12XD1421400]
- Guangdong Innovative Research Team Program [2009010016]
- Program of Shenzhen Commission for Science and Technology [JCYJ20130329171031740]
Background: Differences in 5-hydroxymethylcytosine, 5hmC, distributions may complicate previous observations of abnormal cytosine methylation statuses that are used for the identification of new tumor suppressor gene candidates that are relevant to human hepatocarcinogenesis. The simultaneous detection of 5-methylcytosine and 5-hydroxymethylcytosine is likely to stimulate the discovery of aberrantly methylated genes with increased accuracy in human hepatocellular carcinoma. Results: Here, we performed ultra-performance liquid chromatography/tandem mass spectrometry and single-base high-throughput sequencing, Hydroxymethylation and Methylation Sensitive Tag sequencing, HMST-seq, to synchronously measure these two modifications in human hepatocellular carcinoma samples. After identification of differentially methylated and hydroxymethylated genes in human hepatocellular carcinoma, we integrate DNA copy-number alterations, as determined using array-based comparative genomic hybridization data, with gene expression to identify genes that are potentially silenced by promoter hypermethylation. Conclusions: We report a high enrichment of genes with epigenetic aberrations in cancer signaling pathways. Six genes were selected as tumor suppressor gene candidates, among which, ECM1, ATF5 and EOMES are confirmed via siRNA experiments to have potential anti-cancer functions.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据