Please note that we have stopped the regular imports of Gene Expression Omnibus (GEO) data into ArrayExpress. This may not be the latest version of this experiment.

E-GEOD-51239 - DNA methylation dynamics of the human pre-implantation embryo

Status
Released on 23 July 2014, last updated on 7 September 2014
Organism
Homo sapiens, Mus musculus
Samples (48)
Protocols (5)
Description
We present genome-scale maps of DNA methylation in early human development and perform comparative analysis to mouse that confirm a conserved global erasure of the paternal genome. We find that while many global features of the early embryo are consistent between the two species, the target sequences in which DNA methylation is maintained are distinct. Repetitive elements show a broader range of class specific behaviors in the human embryo and a larger degree of methylation escape in human sperm. We identify thousands of differentially methylated regions (DMRs) that are likely of maternal origin and found that these gamete contributed DMRs are far more species-specific than expected given the conservation of canonical imprint control regions (ICRs). Finally, we extended our studies to the derivation of new human embryonic stem cell (ESC) lines and found notable divergences in DNA methylation signatures from those found in the human embryo and different mouse ESC derivation conditions. Comparison of DNA methylation patterns in human early development, human ESC derivation and mouse ESC derivation
Experiment type
methylation profiling by high throughput sequencing 
Contacts
Michelle M Chan <geo@ncbi.nlm.nih.gov>, Alexander Meissner, Aviv Regev, Kathryn C Humm, Kevin Eggan, Shila Mekhoubad, Zachary D Smith
Citation
DNA methylation dynamics of the human preimplantation embryo. Smith ZD, Chan MM, Humm KC, Karnik R, Mekhoubad S, Regev A, Eggan K, Meissner A. , PMID:25079558
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Links