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Series GSE13053 Query DataSets for GSE13053
Status Public on Jul 19, 2010
Title Atf1-mediated active gene response to H2O2 challenge.
Organism Schizosaccharomyces pombe
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Summary Here we present the study on ChIP-chip mapping of the genomic binding sites for Sty1, Atf1, and the Atf1's binding partner Pcr1; the genome-wide transcriptional profiling of the atf1 and pcr1 strains in response to H2O2; and the phenotypic assessment of ~90 Atf1/Pcr1-bound or unbound genes for growth fitness under H2O2 conditions. ChIP-chip analysis shows that Atf1 and Pcr1 binding sites are overlapped in the genome and constitutively present before H2O2 stress. On the other hand, Sty1 recruitment primarily occurs at the Atf1/Pcr1 binding sites and is induced by H2O2. We found that Atf1/Pcr1 is clearly responsible for the high-level transcriptional response to H2O2. Furthermore, phenotypic assessment indicates that among the H2O2-induced genes, Atf1/Pcr1-bound genes exhibit a higher likelihood of functional requirement for growth fitness under the stress condition than the Atf1/Pcr1-unbound genes do. Notably, we found that the Atf1/Pcr1-bound genes regardless of their responsiveness to H2O2 show a high probability of requirement for growth fitness.

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Overall design Expression level of genes in triplicates at 0min (without stress) is compared with that at 10, 30, 60, and 120min after stress treatment. ChIP-chip analyses is done for Atf1-HA, pcr1-HA, sty1-HA, Sty1-HA allele in the atf1D or pcr1D background without and with H2O2 (0.5mM for 30min).
 
Contributor(s) Eshaghi M, Liu J
Citation(s) 20661279
Submission date Oct 06, 2008
Last update date Jan 18, 2013
Contact name Majid Eshaghi
E-mail(s) meshaghi@hotmail.com
Organization name Genome Institute of Singapore
Department Bilogical Investigation
Lab System Biology
Street address Biopolis
City Singapore
State/province Singapore
ZIP/Postal code 138672
Country Singapore
 
Platforms (2)
GPL1932 S. pombe 10K long oligonucleotide array
GPL6279 S. pombe Nimblegen tiling array
Samples (53)
GSM327056 WT strain treated with 0.5mM H2O2 at zero time point and WT strain with no treatment (1st repeat)
GSM327057 WT strain treated with 0.5mM H2O2 at zero time point and WT strain with no treatment (2nd repeat)
GSM327058 WT strain treated with 0.5mM H2O2 at zero time point and WT strain with no treatment (3rd repeat)
Relations
BioProject PRJNA109969

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
GSE13053_RAW.tar 157.5 Mb (http)(custom) TAR (of GPR, PAIR)
Processed data included within Sample table
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