Integrated epigenomic analyses of enhancer as well as promoter regions in gastric cancer

Cited 11 time in scopus
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Title
Integrated epigenomic analyses of enhancer as well as promoter regions in gastric cancer
Author(s)
Su-Jin Baek; Mirang Kim; Dong-Hyuck Bae; Jeong-Hwan Kim; Hee-Jin Kim; M E Han; S O Oh; Yong Sung Kim; Seon-Young Kim
Bibliographic Citation
Oncotarget, vol. 7, no. 18, pp. 25620-25631
Publication Year
2016
Abstract
Abnormal DNA methylation is an epigenetic mechanism that promotes gastric carcinogenesis. While the abnormal methylation at promoter regions has been characterized for many genes, the function of DNA methylation marks at distal regulatory regions in gastric cancer remains poorly described. Here, we performed RNA-seq, MBD-seq, and H3K27ac ChIP-seq on gastric tissues and cell lines to understand the epigenetic changes in the distal as well as the proximal regulatory regions. In total, 257,651 significant DMRs (Differentially methylated regions) were identified in gastric cancer, and the majority of these DMRs were located in the intergenic, intronic, and non-coding RNA regions. We identified the aberrant expression of many genes and lncRNAs due to changes in DNA methylation. Furthermore, we profiled the molecular subtype-specific methylation patterns in gastric cancer to characterize subtype-specific regulators that undergo DNA methylation changes. Our findings provide insights for understanding methylation changes at distal regulatory regions and reveal novel epigenetic targets in gastric cancer.
Keyword
DNA methylationEnhancerGastric cancerLncRNAsPromoter
ISSN
1949-2553
Publisher
Impact Journals
DOI
http://dx.doi.org/10.18632/oncotarget.8239
Type
Article
Appears in Collections:
Aging Convergence Research Center > 1. Journal Articles
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