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Series GSE53610 Query DataSets for GSE53610
Status Public on Jul 13, 2014
Title Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells [human]
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary Stable maintenance of gene regulatory programs is essential for normal function in multi-cellular organisms. Epigenetic mechanisms, and DNA methylation in particular, are hypothesized to facilitate such maintenance by creating cellular memory that can be written during embryonic development and then guide cell-type specific gene expression. Here we use new methods to study distributions of DNA methylation patterns within cell populations to show that embryonic stem cells preserve their epigenetic state by balancing antagonistic processes that add and remove methylation marks rather than by copying epigenetic information from mother to daughter cells. Quantitative tuning of this equilibrium leads to convergence into a binary epigenetic configuration maintaining a sharp distinction between methylated and unmethylated regions. In contrast, somatic cells transmit considerable epigenetic information from mother to daughter cell. Paradoxically, the persistence of the somatic epigenome makes it more vulnerable to noise, since random epi-mutations can be preserved and accumulate to massively perturb the binary epigenomic ground state. Epigenetic perturbation is not observed in the pluripotent state, since the rapid turnover-based equilibrium continuously reinforces the canonical state. This dynamic epigenetic equilibrium also explains how the somatic epigenome can be reprogrammed quickly and accurately following induced pluripotency.
Overall design Comparison of single cell clonal population DNA methylation variation to the original population in 6 cell lines and 1 primary
Contributor(s) Shipony Z
Citation(s) 25043040
Submission date Dec 23, 2013
Last update date May 15, 2019
Contact name Amos Tanay
Organization name Weizmann Institute of Science
Street address 234 Herzl St.
City Rehovot
State/province ISR
ZIP/Postal code 7610001
Country Israel
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (48)
GSM1296802 WI-38 Population rep1
GSM1296803 WI-38 Population rep2
GSM1296804 WI-38 Clone #1 rep1
This SubSeries is part of SuperSeries:
GSE54960 Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells
BioProject PRJNA232483
SRA SRP034700

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE53610_CellCycle_H9_G.pats.txt.gz 33.5 Mb (ftp)(http) TXT
GSE53610_CellCycle_H9_S.pats.txt.gz 38.1 Mb (ftp)(http) TXT
GSE53610_CellCycle_WI38_G_T1.pats.txt.gz 39.1 Mb (ftp)(http) TXT
GSE53610_CellCycle_WI38_G_T2.pats.txt.gz 32.1 Mb (ftp)(http) TXT
GSE53610_CellCycle_WI38_S_T1.pats.txt.gz 44.5 Mb (ftp)(http) TXT
GSE53610_CellCycle_WI38_S_T2.pats.txt.gz 41.0 Mb (ftp)(http) TXT
GSE53610_H1_Clone1.pats.txt.gz 47.5 Mb (ftp)(http) TXT
GSE53610_H1_Clone2.pats.txt.gz 49.1 Mb (ftp)(http) TXT
GSE53610_H1_Population.pats.txt.gz 53.8 Mb (ftp)(http) TXT
GSE53610_H9_Clone1.pats.txt.gz 33.8 Mb (ftp)(http) TXT
GSE53610_H9_Clone2.pats.txt.gz 43.6 Mb (ftp)(http) TXT
GSE53610_H9_Population.pats.txt.gz 77.2 Mb (ftp)(http) TXT
GSE53610_HepG2_Clone1.pats.txt.gz 39.6 Mb (ftp)(http) TXT
GSE53610_HepG2_Population.pats.txt.gz 45.6 Mb (ftp)(http) TXT
GSE53610_K562_Clone1.pats.txt.gz 56.4 Mb (ftp)(http) TXT
GSE53610_K562_Clone2.pats.txt.gz 56.5 Mb (ftp)(http) TXT
GSE53610_K562_Clone3.pats.txt.gz 54.7 Mb (ftp)(http) TXT
GSE53610_K562_Population.pats.txt.gz 37.3 Mb (ftp)(http) TXT
GSE53610_MCF7_Clone1.pats.txt.gz 40.5 Mb (ftp)(http) TXT
GSE53610_MCF7_Population.pats.txt.gz 38.8 Mb (ftp)(http) TXT
GSE53610_MspI_Fragments.coords.txt.gz 18.8 Mb (ftp)(http) TXT
GSE53610_WI38_Clone1.pats.txt.gz 63.9 Mb (ftp)(http) TXT
GSE53610_WI38_Clone2.pats.txt.gz 69.3 Mb (ftp)(http) TXT
GSE53610_WI38_Clone3.pats.txt.gz 69.6 Mb (ftp)(http) TXT
GSE53610_WI38_Clone4.pats.txt.gz 64.6 Mb (ftp)(http) TXT
GSE53610_WI38_Clone5.pats.txt.gz 68.7 Mb (ftp)(http) TXT
GSE53610_WI38_Clone6.pats.txt.gz 47.4 Mb (ftp)(http) TXT
GSE53610_WI38_Population.pats.txt.gz 90.7 Mb (ftp)(http) TXT
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