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Comparison of transcriptome profile between wild-type and Epi-df mutant plants
Liguo Zhang, Chinese Academy of Agricultural Sciences, Beijing, China (liguozhang83@gmail.com)
Experiment design (6 hybridizations)
genotype
•WT •Epi-df

This experiment has been imported by PLEXdb from NCBI GEO (GSE39298)

Series_summary:
We identified and characterized a rice epigeneti...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Comparison of transcriptome profile between wild-type and Epi-df mutant plants
Accession No: OS97
Microarray: Rice57k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•WT   •Epi-df
Quality Control: biological replicates
Treatment summary:
 genotype  # replicates
 WT  3
 Epi-df  3
Total hybridizations: 6
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE39298)

Series_summary:
We identified and characterized a rice epigenetic mutant Epi-df which exhibits a dwarf stature and various floral defects that are inherited in a dominant fashion. We demonstrated that Epi-df participates in Polycomb repressive complex 2 (PRC2) mediated gene silencing. Epigenetic mutations results in ectopic expression of Epi-df and pleiotropic developmental defects in mutant plants. Moreover, ectopic expression of Epi-df leads to mis-regulated H3K27me3 and changed expression of hundreds of genes involved in a wide range of biological processes.
We used microarrays to identify differentially expressed genes in Epi-df.

Series_overall_design:
For genome-wide expression analysis of Epi-df, three replicates of WT and Epi-df samples (RNA from 3-week-old seedlings) were analyzed on Affymetrix Genechip® Rice Genome arrays by an Affymetrix service facility (CapitalBio Corporation) according to the manufacturer’s protocols. Genes showing a 2-fold change with a q-value ≤ 0.05 were considered to be differentially expressed.
Publication: none
Created: 2012-08-22 14:25:06
Last Update: 2012-08-27 19:09:03
Released: 2012-09-07
GEO Accession GSE39298
Submitter: PLEXdb Curator
Name: Liguo Zhang
Institution: Chinese Academy of Agricultural Sciences, Beijing, China
Head of Laboratory: Li Zhi-Kang
email(s):
Homepage:

 
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