|
| Status |
Public on Oct 20, 2016 |
| Title |
Temporal DNA methylation analysis (RRBS) for differentiating mouse embryonic stem cells deficient for Zeb2 |
| Organism |
Mus musculus |
| Experiment type |
Methylation profiling by high throughput sequencing
|
| Summary |
In this study we performed temporal profiling of DNA methylation by RRBseq of differentiating mouse embryonic stem cells using an embryoid body protocol. Analysis at d0, d4 and d6 revealed that Zeb2 deficient mESC lose their initially acquired DNA methylation at d6.
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| Overall design |
DNA methylation analysis using RRBseq was performed on Zeb2 KO and Ctrl (fl/fl) samples at 3 consecutive time-points - corresponding to ground-state mESC (d0), multi-potent progenitor (d4) and neural progenitor (d6) - in 2 independent experiments.
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| |
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| Contributor(s) |
Dries R, Stryjewska A, Huylebroeck D |
| Citation(s) |
27739137 |
| |
| Submission date |
Dec 02, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Ruben Dries |
| E-mail(s) |
rubendries@gmail.com
|
| Organization name |
DFCI
|
| Department |
Computational Biology
|
| Lab |
Longwood Center
|
| Street address |
360 Longwood Ave
|
| City |
Boston |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE75618 |
Temporal transcriptome and methylome analysis of differentiating mouse embryonic stem cells deficient for Zeb2 |
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| Relations |
| BioProject |
PRJNA304746 |
| SRA |
SRP066911 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE75617_CpG_context_Ctrl_D0.bedGraph.gz |
4.2 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_CpG_context_Ctrl_D4.bedGraph.gz |
4.4 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_CpG_context_Ctrl_D6.bedGraph.gz |
4.7 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_CpG_context_KO_D0.bedGraph.gz |
4.2 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_CpG_context_KO_D4.bedGraph.gz |
4.6 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_CpG_context_KO_D6.bedGraph.gz |
4.4 Mb |
(ftp)(http) |
BEDGRAPH |
| GSE75617_R1_Stryjewska_et_al_Suppl_Table_VII_RRBS_Temporal.xlsx |
92.8 Mb |
(ftp)(http) |
XLSX |
| GSE75617_R1_Stryjewska_et_al_Suppl_Table_VI_RRBS_Pairwise.xlsx |
67.5 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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