← BioTransfer GEO Dataset Finder
GEO series

Programming and inheritance of parental DNA methylomes in mammals

GSE56697 Mus musculus Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing 13 samples Submitted 2014/05/12 Platform GPL13112
Summary
The reprogramming of parental methylomes is essential for embryonic development. In mammals, paternal 5-methylcytosines (5mCs) have been proposed to be actively converted to oxidized bases. These paternal oxidized bases and maternal 5mCs are believed to be passively diluted by cell divisions. By generating single-base resolution, allele-specific DNA methylomes from mouse gametes, early embryos, and primordial germ cell (PGC), as well as single-base-resolution maps of oxidized cytosine bases for early embryos, we report the existence of 5hmC and 5fC in both maternal and paternal genomes and find that 5mC or its oxidized derivatives, at the majority of demethylated CpGs, are converted to unmodified cytosines independent of passive dilution from gametes to four-cell embryos. Therefore, we conclude that paternal methylome and at least a significant proportion of maternal methylome go through active demethylation during embryonic development. Additionally, all the known imprinting control regions (ICRs) were classified into germ-line or somatic ICRs.
This dataset
Download

Direct links to NCBI, no account and no request form: the whole study as GSE56697_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 13 samples. Raw sequencing reads are also available from ENA.

Also filed as BioProject PRJNA244322 and SRA study SRP041083. Searching any of these in the dataset finder brings you back here.

Samples in this study

The sample list for this study is not cached yet. Press Sort into groups and it will be fetched from NCBI.

+ 13 more — browse all 13 samples with per-sample file links →

Similar datasets

Search all mouse RNA-seq datasets in GEO →

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.