|
| Status |
Public on Feb 22, 2017 |
| Title |
Combinatorial DNA methylation codes at repetitive elements |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
|
| Summary |
DNA methylation is an essential epigenetic modification, present in both unique DNA sequences and repetitive elements, but its exact function in repetitive elements remains obscure. Here, we describe the genome-wide comparative analysis of the 5mC, 5hmC, 5fC and 5caC profiles of repetitive elements in mouse embryonic fibroblasts and mouse embryonic stem cells. We provide evidence for distinct and highly specific DNA methylation/oxidation patterns of the repetitive elements in both cell types, which mainly affect CA repeats and evolutionary conserved mouse-specific transposable elements including IAP-LTRs, SINEs B1m/B2m and L1Md-LINEs. DNA methylation controls the expression of these retro-elements, which are clustered at specific locations in the mouse genome. We show that TDG is implicated in the regulation of their unique DNA methylation/oxidation signatures and their dynamics. Our data suggest the existence of novel epigenetic code for the most recently acquired evolutionary conserved repeats that could play a major role in cell differentiation.
This SuperSeries is composed of the SubSeries listed below.
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| |
|
| Overall design |
Refer to individual Series
|
| |
|
| Citation(s) |
28348165 |
| Submission date |
Mar 02, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Christophe Papin |
| E-mail(s) |
papin@igbmc.fr
|
| Organization name |
IGBMC - CNRS UMR 7104 - Inserm U 964
|
| Street address |
1 rue Laurent Fries
|
| City |
ILLKIRCH-GRAFFENSTADEN |
| ZIP/Postal code |
67404 |
| Country |
France |
| |
|
| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (27)
|
|
| This SuperSeries is composed of the following SubSeries: |
| GSE77767 |
Combinatorial DNA methylation codes at repetitive elements [ChIP-Seq] |
| GSE77768 |
Combinatorial DNA methylation codes at repetitive elements [MeDIP-Seq] |
| GSE77769 |
Combinatorial DNA methylation codes at repetitive elements [RNA-Seq] |
|
| Relations |
| BioProject |
PRJNA276976 |
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