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Series GSE79883 Query DataSets for GSE79883
Status Public on Jun 21, 2016
Title Gene expression profiling during cardiac maturation, hypertrophy and after KD of TET2
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Methylation at 5-cytosine (5-mC) is a fundamental epigenetic DNA modification associated recently with cardiac disease. In contrast, the role of 5-hydroxymethylcytosine (5-hmC) – 5-mC’s oxidation product – is unknown in the context of the heart. Here, we assess the hydroxymethylome in embryonic, neonatal, adult and hypertrophic mouse cardiomyocytes, showing that dynamic modulation of hydroxymethylated DNA is associated with specific transcriptional networks during heart development and failure. DNA hydroxymethylation marks gene bodies of highly expressed genes and distal regulatory regions with enhanced activity. Pathological hypertrophy is characterized by a partial shift towards a fetal-like distribution pattern.
We further demonstrate a regulatory function of TET2 and provide evidence that the expression of key cardiac genes, such as Myh7 is modulated by TET2-mediated 5-hmC deposition on the gene body and at enhancers in cardiac cells.
We thus provide the first genome-wide analysis of 5-hmC in the cardiomyocyte, and establish the role of this epigenetic modification in heart development and disease
Overall design Profiling of the transcriptome of embryonic, neonatal, adult, 1 week hypertrophic cardiomyocytes, sh-control and sh-TET2 cardiomyocytes. Two biological replicates were profiled for each cell type.
Contributor(s) Kunderfranco P, Greco CM, Condorelli G
Citation(s) 27489048
Submission date Apr 04, 2016
Last update date Nov 05, 2020
Contact name Paolo Kunderfranco
Organization name Humanitas Research Hospital
Department Research
Lab Bioinformatic Unit
Street address Via Rita Levi Montalcini 4
City Pieve Emanuele
State/province Milano
ZIP/Postal code 20090
Country Italy
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (12)
GSM2107827 E14.5_rep1
GSM2107828 E14.5_rep2
GSM2107829 Neonatal_rep1
This SubSeries is part of SuperSeries:
GSE66847 Dynamics of 5-hmC in cardiac maturation and hypertrophy
BioProject PRJNA317318
SRA SRP072881

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE79883_RAW.tar 7.9 Gb (http)(custom) TAR (of BW)
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Processed data are available on Series record
Raw data are available in SRA

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