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Series GSE41048 Query DataSets for GSE41048
Status Public on Sep 24, 2012
Title Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues (ChIP-Seq and MeDIP-Seq)
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary DNA methylation has been comprehensively profiled in normal and cancer cells, but the dynamics that form, maintain and reprogram differentially methylated regions remain enigmatic. We show that methylation patterns within populations of cells from individual somatic tissues are heterogeneous and polymorphic. Using in vitro evolution of immortalized fibroblasts for over 300 generations, we track the dynamics of polymorphic methylation at regions developing significant differential methylation on average. The data indicate that changes in population-averaged methylation occur through a stochastic process that generates a stream of local and uncorrelated methylation aberrations. Despite the stochastic nature of the process, nearly deterministic epigenetic remodeling emerges on average at loci that lose or gain resistance to methylation accumulation. Changes in the susceptibility to methylation accumulation are correlated with changes in histone modifications and CTCF occupancy. Characterizing epigenomic polymorphism within cell populations is therefore critical for understanding methylation dynamics in normal and cancer cells.
Overall design Genomewide sequencing data is included herein: H3K27me3 profiled throughout the microevolutionary timecourse using ChIP-seq, DNA methylation profiled through the timecourse using MeDIP-seq, and H3K4me3 and CTCF profiled in late and early timepoints using ChIP-seq. Deep Bisulfite sequencing amplicon data and results can be obtained at: .
Contributor(s) Landan G
Citation(s) 23064413
Submission date Sep 21, 2012
Last update date May 15, 2019
Contact name Gilad Landan
Organization name Weizmann Institute of Science
Street address 234 Herzl Street
City Rehovot
ZIP/Postal code 76100
Country Israel
Platforms (1)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
Samples (21)
GSM1007980 MeDIP seq 19
GSM1007981 MeDIP seq A39
GSM1007982 MeDIP seq A50
This SubSeries is part of SuperSeries:
GSE41050 Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues
BioProject PRJNA175631
SRA SRP015835

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Supplementary file Size Download File type/resource
GSE41048_RAW.tar 7.5 Gb (http)(custom) TAR (of BW)
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Raw data are available in SRA
Processed data provided as supplementary file

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