GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE48052 Query DataSets for GSE48052
Status Public on Jun 19, 2013
Title DNA methylome and transcriptome analysis of normal and HBx transgenic mouse liver
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary A genome-wide integrated methylome and transcriptome analysis of the early stage of hepatocellular carcinoma development that induced by HBx. The HBV x (HBx) protein, which plays a critical role in the development of HCC, was shown to interact with several epigenetic factors, such as DNMT3A and HDAC1. Most HBx transgenic (TG) mice spontaneously develop HCC at about 1 year of age, providing genetic validation of the oncogenic potential of HBx even in the absence of viral integration and chronic inflammation. Therefore, it would be intriguing to study the regulatory role of HBx in the epigenome and its impact on HCC development. We performed a genome-wide analysis to examine the differences in DNA methylation patterns and RNA transcriptions between cancer and normal liver cells.
Overall design High-throughput sequencing analysis of MIRA (methylated CpG island recovery assay) and mRNA at 3 mouth old age mouse liver
Contributor(s) Lee S, Bae J
Citation(s) 24941955, 28105934
Submission date Jun 18, 2013
Last update date Jul 15, 2019
Contact name Sun-Min LEE
Organization name Yonsei University
Department Biochemistry
Lab Genome Regulation Center
Street address Shinchon-dong Seodeamun-gu
City Seoul
ZIP/Postal code 120-749
Country South Korea
Platforms (1)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (4)
GSM1277690 Normal_MIRA
GSM1277691 HBx_MIRA
GSM1277692 Normal_RNA
BioProject PRJNA208793
SRA SRP033429

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE48052_RAW.tar 1015.9 Mb (http)(custom) TAR (of RPKM)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap