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Series GSE32268 Query DataSets for GSE32268
Status Public on Mar 28, 2012
Title Role of DNMT3B in the regulation of early neural and neural crest specifiers
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary The de novo DNA methyltransferase DNMT3B functions in establishing DNA methylation patterns during development. We performed RNAi knockdown of DNMT3B in human embryonic stem cells (ESCs) in order to investigate the mechanistic contribution of DNMT3B on DNA methylation and early neuronal differentiation. Genome-wide analyses of DNA methylation by MethylC-seq identified novel regions of hypomethylation in the DNMT3B knockdowns along the X chromosome as well as pericentromeric regions, rather than changes to specific dysregulated gene promoters. While DNMT3B was not required for early neuroepithelium specification, DNMT3B deficient neuroepithelium exhibited accelerated maturation with earlier expression of mature neuronal markers (such as NEUROD1) and early neuronal regional specifiers (such as neural crest) relative to normal ESCs. Our results suggest that DNMT3B mediates large-scale methylation patterns in human ESCs and that DNMT3B deficiency alters the timing of neuronal maturational differentiation in human neuronal cultures.
Overall design Examined DNA methylation in human embryonic stem cells, both with and without DNMT3B knockdown
Contributor(s) Schroeder DI, LaSalle JM
Citation(s) 22207353
Submission date Sep 21, 2011
Last update date May 15, 2019
Contact name Janine LaSalle
Organization name UC Davis
Street address Medical Microbiology and Immunology
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (4)
GSM799464 mis24_hESC_MethylC-seq
GSM799465 3B13_hESC_MethylC-seq
GSM799466 mis24_d12_MethylC-seq
SRA SRP008337
BioProject PRJNA147333

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Supplementary file Size Download File type/resource
GSE32268_RAW.tar 411.1 Mb (http)(custom) TAR (of BED)
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Raw data are available in SRA
Processed data provided as supplementary file

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