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Series GSE46233 Query DataSets for GSE46233
Status Public on Apr 12, 2019
Title Epigenomic Landscape derived from ChIP-Seq of 1,000 mouse early embryonic cells
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) is a powerful tool to dissect global epigenetic landscapes of cells. However, this method usually consumes millions of cells. Here we develop a robust technique for performing ChIP-Seq using as low as 1,000 cells. This method combines a semi-automatic nanoliter ChIP reaction with a carrier-based sequencing library preparation strategy without pre-amplification of the ChIP product. We used this method to investigate the pattern of trimethylation of histone 3 lysine 4 (H3K4me3) of mouse post-implantation epiblast cells at embryonic day 6.5 (E6.5) and showed that it is very similar to that of mEpiSCs. Together with the high similarity between the transcriptomes of EpiSCs and E6.5 epiblast cells, this suggests that EpiSCs is a reliable in vitro model for post-implantation epiblast cells in vivo.
Overall design Use 1 million cells mEpiSC as the positive control, 1000 mEpiSC sample is used to validate the protocol. Embryo_exp1 and embryo_exp2 are two biological replicates
Contributor(s) Huang Y, Tang F
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Submission date Apr 19, 2013
Last update date May 15, 2019
Contact name Yusi Fu
Organization name PKU
Street address biopic,PKU
City Beijing
State/province ---
ZIP/Postal code 100871
Country China
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (4)
GSM1126847 embryo_exp1
GSM1126848 embryo_exp2
GSM1126849 mEpiSC1000
BioProject PRJNA198200
SRA SRP021198

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

Supplementary file Size Download File type/resource
GSE46233_RAW.tar 1.1 Gb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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