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

ABSTRACT: We performed H3K27ac ChIP-seq data in seven gastric cancer cell lines to investigate the functional significance of epigenetic changes at distal regulatory regions H3K27ac ChIP-seq profiling of gastric cancer cell lines were generated by deep sequencing, in each seven samples, using Illumina GAIIx and Hiseq-2000

ORGANISM(S): Homo sapiens

SUBMITTER: sujin Baek

PROVIDER: E-GEOD-75595 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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

Baek Su-Jin SJ Kim Mirang M Bae Dong-Hyuck DH Kim Jeong-Hwan JH Kim Hee-Jin HJ Han Myoung-Eun ME Oh Sae-Ock SO Kim Yong Sung YS Kim Seon-Young SY

Oncotarget 20160501 18

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 sign ...[more]

PMID: 27016420

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

Project description:To understand epigenetic changes in the distal regulatory as well as proximal regions, we performed RNA-seq, MBD-seq, and H3K27ac ChIP-seq on gastric tissues and cell lines MBD sequencing of normal tissue (n), purified gastric cancer (sc), and cultured gastric cancer cell (dc) were generated by deep sequencing, in five samples from three patients (csc1, csc2, csc3) and two replicates (csc1_sc2, csc1_sc3), using Illumina GAIIx.

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Project description:To understand epigenetic changes in the distal regulatory as well as proximal regions, we performed RNA-seq, MBD-seq, and H3K27ac ChIP-seq on gastric tissues and cell lines. mRNA sequencing profiles of normal tissue (n), purified gastric cancer (sc), and cultured gastric cancer cell (dc) were generated by deep sequencing, in five samples from three patients (csc1, csc2, csc3) and two replicates (csc1_sc2, csc1_sc3), using Illumina GAIIx and HiSeq2000.

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