GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE115289 Query DataSets for GSE115289
Status Public on Jun 27, 2019
Title Genome-wide analysis of DNA methylation in KRAB-ZFP cluster KO ES cells
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Summary We report a retrotransposon-specific loss of CpG methylation in chromosome 4 KRAB-ZFP cluster (Chr4-cl) KO ES cells that are cultivated in conditions that induce DNA hypomethylation. The retrotransposon groups with the strongest DNA methylation loss are the main targets of the KRAB-ZFPs within the deleted gene cluster indicating that these KRAB-ZFPs prevent complete DNA demethylation at retrotransposons during global DNA demethylation.
Overall design Analysis of CpG methylation status in WT and Chr4-cl KO ES cells in serum and 2i + vitamin C growth condition,
Contributor(s) Wolf G, Macfarlan T, Sun M
Citation(s) 32479262
Submission date Jun 04, 2018
Last update date Jun 15, 2020
Contact name Gernot Wolf
Organization name NIH
Department NICHD
Lab Macfarlan lab
Street address 6 Center Drive
City Bethesda
State/province Maryland
ZIP/Postal code 20892
Country USA
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21493 Illumina HiSeq 3000 (Mus musculus)
Samples (4)
GSM3173830 RRBS Chr4-cl WT (serum)
GSM3173831 RRBS Chr4-cl WT (2i + Vit. C)
GSM3173832 RRBS Chr4-cl KO (serum)
This SubSeries is part of SuperSeries:
GSE115291 Retrotransposon reactivation and mobilization upon deletions of megabase-scale KRAB zinc finger gene clusters in mice
BioProject PRJNA474491
SRA SRP149701

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE115289_RAW.tar 101.7 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap