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Series GSE18076 Query DataSets for GSE18076
Status Public on Nov 03, 2009
Title G9a selectively represses a class of late-replicating genes at the nuclear periphery (Expression)
Organism Mus musculus
Experiment type Expression profiling by array
Summary We have investigated the role of the histone methyltransferase G9a in the establishment of silent nuclear compartments. Following conditional knockout of the G9a methyltransferase in mouse ESCs, 167 genes were significantly up-regulated, and no genes were strongly down-regulated. A partially overlapping set of 119 genes were up-regulated after differentiation of G9a-depleted cells to neural precursors. Promoters of these G9a-repressed genes were AT rich and H3K9me2 enriched but H3K4me3 depleted and were not highly DNA methylated. Representative genes were found to be close to the nuclear periphery, which was significantly enriched for G9a-dependent H3K9me2. Strikingly, although 73% of total genes were early replicating, more than 71% of G9a-repressed genes were late replicating, and a strong correlation was found between H3K9me2 and late replication. However, G9a loss did not significantly affect subnuclear position or replication timing of any non-pericentric regions of the genome, nor did it affect programmed changes in replication timing that accompany differentiation. We conclude that G9a is a gatekeeper for a specific set of genes localized within the late replicating nuclear periphery.
 
Overall design 4 cell states each in duplicate (i.e. a total of 8 individual replicates)
 
Contributor(s) Yokochi T, Hiratani I
Citation(s) 19889976
Submission date Sep 11, 2009
Last update date Jan 18, 2013
Contact name Ichiro Hiratani
Organization name Florida State University
Department Biological Science
Lab David M Gilbert
Street address 319 Stadium Dr
City Tallahassee
State/province FL
ZIP/Postal code 32306
Country USA
 
Platforms (1)
GPL9154 NimbleGen Mouse 60-mer Expression Array 42.5K
Samples (8)
GSM451886 Gene expression analysis of TT2-G9aflox/delta ESC, Mock, replicate 1
GSM451887 Gene expression analysis of TT2-G9aflox/delta ESC, Mock, replicate 2
GSM451888 Gene expression analysis of TT2-G9aflox/delta ESC, +OHT, replicate 1
This SubSeries is part of SuperSeries:
GSE18082 G9a selectively represses a class of late-replicating genes at the nuclear periphery
Relations
BioProject PRJNA123467

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
GSE18076_RAW.tar 87.0 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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