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Series GSE59970 Query DataSets for GSE59970
Status Public on Aug 01, 2014
Title Genome-wide DNA methylation analysis reveals dynamic changes in the cardiac methylome during post-natal heart development (RNA-Seq)
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Epigenetic modifications have emerged as central players in the coordination of gene expression networks during cardiac development. While several studies have investigated the role of histone modifications during heart development, relatively little is known about the role of DNA methylation. The purpose of the current study was to determine whether DNA methylation plays an important role in guiding transcriptional changes during the neonatal period, which is an important developmental window for cardiac maturation and cardiomyocyte cell cycle arrest. We used methyl binding domain protein sequencing (MBD-seq) and mRNA-seq to profile DNA methyation and gene expression respectively in neonatal hearts at P1 and P14 stages. Thousands of differentially methylated regions (DMRs) were identified between P1 and P14, the vast majority of which were hypermethylated. Gene ontology analysis revealed that these hypermethylated genes were associated with transcriptional regulation of important developmental signaling pathways, including Hedgehog, BMP, TGF beta, FGF and Wnt/b-catenin signaling. A significant enrichment for myogenic transcription factors and Smad2/3/4 binding sites was also noted among differentially methylated peaks at P14. This study provides novel evidence for widespread alterations in DNA methylation during post-natal heart maturation and suggests that DNA methylation plays an important role in cardiomyocyte cell cycle arrest during the neonatal period.
Overall design mRNA-seq to profile gene expression in neonatal hearts at P1 and P14 stages (post-natal day 1 and 14 respectively) in three biological replicates.
Contributor(s) Sim CB, Ziemann M, Harikrishnan KN, Kaspi A, Ooi J, Chang L, Khurana I, Olson EN, Hudson JE, El-Osta A, Porrello ER
Citation(s) 25491312
Submission date Jul 31, 2014
Last update date May 15, 2019
Contact name Mark D Ziemann
Organization name Deakin University
Department Life and Environmental Sciences
Street address 75 Pigdons rd
City Waurn Ponds
State/province VIC
ZIP/Postal code 3216
Country Australia
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (6)
GSM1462883 P1 (RNA-Seq) replicate1
GSM1462884 P1 (RNA-Seq) replicate2
GSM1462885 P1 (RNA-Seq) replicate3
This SubSeries is part of SuperSeries:
GSE59971 Genome-wide DNA methylation analysis reveals dynamic changes in the cardiac methylome during post-natal heart development
BioProject PRJNA257198
SRA SRP045149

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Supplementary file Size Download File type/resource
GSE59970_mRNA_P1_P14_f.txt.gz 255.4 Kb (ftp)(http) TXT
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