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Series GSE85251 Query DataSets for GSE85251
Status Public on May 09, 2018
Title Postnatal DNA demethylation and its role in tissue maturation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary Development in mammals is accompanied by specific de novo and demethylation events that are thought to stabilize differentiated cell phenotypes. We demonstrate that large percentage of the tissue-specific methylation pattern is generated postnatally. Demethylation in the liver is observed in thousands of enhancer-like sequences associated with genes that undergo activation during the first few weeks of life. Using conditional gene ablation strategy we show that the removal of these methyl groups is stable and necessary for assuring proper hepatocyte gene expression and function through its effect on chromatin accessibility. These postnatal changes in methylation come about through exposure to hormone signaling. These results define the molecular rules of 5-methyl-cytosine regulation as an epigenetic mechanism underlying cellular responses to changing environment.
Overall design 131_samples
Contributor(s) Reizel Y, Sabag O, Spiro A, Kaestner KH, Cedar H
Citation(s) 29795194
Submission date Aug 05, 2016
Last update date Jan 17, 2020
Contact name Klaus H Kaestner
Organization name University of Pennsylvania
Department Department of Genetics and Institute for Diabetes Obesity and Metabolism, Perelman School of Medicine
Street address University of Pennsylvania, 12-126 Smilow Center for Translational Research, 3400 Civic Center Boulevard
City Philadelphia
State/province PA
ZIP/Postal code 19104-5156
Country USA
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (131)
GSM2263077 RRBS_Hep_1wk_invitro_rep1
GSM2263078 RRBS_Hep_1wk_invitro_rep2
GSM2263079 RRBS_Hep_1wk_invitro_rep3
BioProject PRJNA337950
SRA SRP081004

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
GSE85251_Big_table_wgbs_200_bp_040516.bed.gz 103.8 Mb (ftp)(http) BED
GSE85251_FPKM_all_files_for_paper.txt.gz 1.8 Mb (ftp)(http) TXT
GSE85251_New_100_bp_tiles_table.txt.gz 70.6 Mb (ftp)(http) TXT
GSE85251_RAW.tar 10.4 Mb (http)(custom) TAR (of BED)
GSE85251_Sample_Chip_585_H3k27Ac_WT.bed.gz 982.5 Kb (ftp)(http) BED
GSE85251_Sample_Chip_585_H3k4me1_WT.bed.gz 1.6 Mb (ftp)(http) BED
GSE85251_Sample_Chip_586_H3k27Ac_KO.bed.gz 1.0 Mb (ftp)(http) BED
GSE85251_Sample_Chip_586_H3k4me1_KO.bed.gz 1.7 Mb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record

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