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Series GSE32687 Query DataSets for GSE32687
Status Public on Oct 04, 2012
Title Identification of maternal imprinting control regions (ICRs) in the post-implantation mouse embryo.
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary Genomewide DNA methylation profiles, generated by MeDIP-seq, for 8.5dpc wildtype and Dnmt3l-/+ mouse embryos were compared to identify differentially methylated regions (DMRs) that depend on the activity of the de novo DNA methyltransferase cofactor Dnmt3l in the oocyte. These DMRs were further characterised by their methylation state in mature mouse sperm and in the livers of inter-subspecies newborn mice. Maternal ICRs were identified by hypomethylation in Dnmt3l-/+ embryos as well as sperm, and maternal allele-specific methylation in liver.
Overall design MeDIP-seq for two pools of wildtype and two pools of Dnmt3l-/+ mouse 8.5dpc embryos, the sperm of three sires, and 12 pools of three different embryonic livers each. Sliding window read count comparison between wildtype and Dnmt3l-/+ embryos, and between wildtype embryos and sperm samples. Read count comparison between the parental alleles at known SNP sites in inter-subspecies liver data.
Contributor(s) Deborah B, Guillermo C, Michael C, Thomas D, Rachel D, Michelle H, Rebecca O, Charlotte P, Vardhman R, Reiner S
Citation(s) 22902559
Submission date Oct 06, 2011
Last update date May 15, 2019
Contact name Reiner Schulz
Organization name King's College London
Department Medical & Molecular Genetics
Lab Epigenetics
Street address 8th floor Guy's Tower
City London
ZIP/Postal code SE1 9RT
Country United Kingdom
Platforms (1)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
Samples (19)
GSM811234 embryo wt rep1
GSM811235 embryo wt rep2
GSM811236 embryo dnmt3l- rep1
SRA SRP008817
BioProject PRJNA146899

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Supplementary file Size Download File type/resource
GSE32687_RAW.tar 37.4 Gb (http)(custom) TAR (of BAM)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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