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Series GSE119251 Query DataSets for GSE119251
Status Public on Dec 31, 2018
Title H3K14me3 Genomic Distributions and its regulation by KDM4 family demethylases [Mm]
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Histone lysine methylations are essential components of the epigenetic regulatory mechanisms. Although major histone lysine methylations have been extensively investigated, low-abundance methylations remain largely under-studied. Among the low-abundance methylations, H3K14me3 has been identified in mammalian cells upon pathological infection by Legionella pneumophila, a gram-negative bacterium and causative agent of a severe form of pneumonia. Global host chromatin H3K14 trimethylation and transcription repression are mediated by an H3K14 methyltransferase, regulator of methylation A (RomA) encoded by the bacterial genome 1. Importantly, previous mass spectrometry studies also suggested the presence of endogenous H3K14 methylations among eukaryotes 2-7, although these findings have not been confirmed by independent means. In addition, the genomic distribution as well as the H3K14me3 regulatory enzymes have not been identified. Here, using an H3K14me3-specific antiserum we report the identification of distinct and shared H3K14me3 distribution patterns in HEK293T and human embryonic stem cells (hESCs), two cell lines with extensive epigenome profiles allowing cross comparisons with other known histone marks. H3K14me3 heavily decorates the KRAB-ZNF (Krupple-associated box containing zinc finger gene) clusters in both the HEK293T and hESC cells but is only strongly associated with active transcription in HEK293T cells, where it binds thousands of active promoters. We further profiled H3K14me3 in a mouse melanoma cell line, B16, and discovered similar distribution features as those in HEK293T cells. Importantly, we identified members of the KDM4 family of histone demethylases (KDM4A, KDM4B and KDM4C) as H3K14me3 demethylases. As the KDM4 family members have been shown to mediate H3K9me3 and H3K36me3 demethylation 8, our findings also revealed crosstalks among these modifications.
 
Overall design Examination of H3K14me3 in mouse cells
 
Contributor(s) Zhao B, Lan F
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Submission date Aug 30, 2018
Last update date Mar 01, 2019
Contact name Fei Lan
E-mail(s) fei_lan@fudan.edu.cn
Organization name Fudan university
Street address 130 Dong An Road
City Shanghai
ZIP/Postal code 200032
Country China
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (2)
GSM3362306 B16F12_H3K14me3
GSM3362307 B16F12_Input
This SubSeries is part of SuperSeries:
GSE119252 H3K14me3 Genomic Distributions and its regulation by KDM4 family demethylases
Relations
BioProject PRJNA488615
SRA SRP159172

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Supplementary file Size Download File type/resource
GSE119251_RAW.tar 160.0 Kb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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