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| Status |
Public on May 19, 2011 |
| Title |
H3K4me3 modification analysis comparing Lsh WT and Lsh-/- MEFs |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
DNA methylation is critical for normal development and plays important roles in genome organization and transcriptional regulation. Although DNA methyltransferases have been identified, the factors that establish and contribute to genome-wide methylation patterns remain elusive. Here, we report a high-resolution cytosine methylation map of the murine genome modulated by Lsh, a chromatin remodeling family member that has previously been shown to regulate CpG methylation at repetitive sequences. We provide evidence that Lsh also controls genome-wide cytosine methylation at nonrepeat sequences and relate those changes to alterations in H4K4me3 modification and gene expression. Deletion of Lsh alters the allocation of cytosine methylation in chromosomal regions of 50 kb to 2 Mb and, in addition, leads to changes in the methylation profile at the 5â² end of genes. Furthermore, we demonstrate that loss of Lsh promotesâas well as preventsâcytosine methylation. Our data indicate that Lsh is an epigenetic modulator that is critical for normal distribution of cytosine methylation throughout the murine genome.
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| Overall design |
Chromatin immunoprecipitation followed by genomic sequencing was used to compare H3K4me3 modifications between wild type murine embryonal fibroblast cell lines (MEFs) and Lsh-/-MEFs.
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| Contributor(s) |
Maunakea A, Che A, Briones V, Lee EY, Geiman T, Huang J, Stephens R, Leighty RM, Zhao K, Muegge K |
| Citation(s) |
21427231 |
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| Submission date |
May 19, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Jigui Shan |
| E-mail(s) |
shanj@mail.nih.gov
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| Organization name |
NCI-Frederick
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| Street address |
430 Miller Dr
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| City |
Frederick |
| ZIP/Postal code |
21702 |
| Country |
USA |
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| Platforms (1) |
| GPL11002 |
Illumina Genome Analyzer IIx (Mus musculus) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE29395 |
Lsh, chromatin remodeling family member, modulates genome-wide cytosine methylation patterns at nonrepeat sequences |
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| Relations |
| SRA |
SRP006814 |
| BioProject |
PRJNA142995 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE29393_RAW.tar |
233.8 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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