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Series GSE26087 Query DataSets for GSE26087
Status Public on Dec 16, 2011
Title Global analysis reveals HDAC1 occupies active and inactive genes and core transcription factors in embryonic stem cells and trophoblast stem cells
Organism Mus musculus
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Summary Epigenetic regulation of gene expression is important in maintaining self-renewal of embryonic stem (ES) cells and trophoblast stem (TS) cells. Histone deacetylases (HDACs) negatively control histone acetylation by removing covalent acetylation marks from histone tails. Because histone acetylation is a known mark for active transcription, HDACs presumably associate with inactive genes. Here, we used genome-wide chromatin immunoprecipitation to investigate targets of HDAC1 in ES cells and TS cells. Through evaluation of genes associated with acetylated histone H3 marks, and global expression analysis of Hdac1 knockout ES cells and trichostatin A treated ES cells and TS cells, we found that HDAC1 occupies mainly active genes, including important regulators of ES cell and TS cell self-renewal. By mapping HDAC1 targets on a global scale, our results describe further insight into epigenetic mechanisms of ES cell and TS cell self-renewal.
Overall design RNA was harvested from ES cells and TS cells cultured in the presence of 0 nM, 10 nM, 50 nM, or 100 nM Trichostatin A (TSA) for 24 hours for transcriptome analysis.
Contributor(s) Kidder BL
Citation(s) 22156375
Submission date Dec 15, 2010
Last update date Feb 11, 2019
Contact name Benjamin L Kidder
Organization name EMD Serono Research Institute
Department Reproductive Health
Street address 1 Technology Place
City Rockland
State/province MA
ZIP/Postal code 02370
Country USA
Platforms (2)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
GPL5811 [Mm_PromPR] Affymetrix Mouse Promoter 1.0R Array
Samples (18)
GSM640454 ES cell, 0 nM TSA, rep1
GSM640455 ES cell, 0 nM TSA, rep2
GSM640456 ES cell, 10 nM TSA, rep1
BioProject PRJNA135199

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
GSE26087_RAW.tar 303.8 Mb (http)(custom) TAR (of BAR, CEL)
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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