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Status |
Public on Sep 22, 2016 |
Title |
Sequencing analysis for 5hmC pull-down DNA |
Organism |
Mus musculus |
Experiment type |
Methylation profiling by high throughput sequencing
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Summary |
The gene body regions of cardiomyocyte-specific genes in cardiomyocytes are hypomethylated. We confirmed that the DNA methylation in gene body regions were demethylated during development. We speculated that the demethylation of gene body regions in cardiomyocyte-specific genes might be associated with active demethylation by Tet oxidation.To explore 5hmC distribution in cells and tissues, we performed 5hmC-specific chemical labeling-mediated pull-down DNA sequencing (hMe-Seal)(Song 2011 Nat genet, PMID:21151123). We found that the 5hmC in gene body regions are associated with demethylation, but not exclusively, and also with transcriptional activity. We concluded that gene body DNA hypomethylation in cardiomyocyte specific genes were mediated by oxidative demethylation.
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Overall design |
Genomic DNA from ESC and heart and liver tissues from different developmental periods was used for the analysis.
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Contributor(s) |
Oda M, Wakabayashi S |
Citation missing |
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Submission date |
Sep 21, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Mayumi Oda |
E-mail(s) |
moda@keio.jp
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Organization name |
Keio University
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Department |
School of Medicine
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Lab |
Institute of Integrated Medical Research
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Street address |
35 Shinanomachi, Shinjuku
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City |
Tokyo |
ZIP/Postal code |
1608582 |
Country |
Japan |
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Platforms (2) |
GPL16417 |
Illumina MiSeq (Mus musculus) |
GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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Samples (12)
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Relations |
BioProject |
PRJNA343772 |
SRA |
SRP090225 |