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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Dynamic changes to nucleosome occupancy and genomic expression in yeast responding to oxidative stress

ABSTRACT: This SuperSeries is composed of the following subset Series: GSE30897: Nucleosome occupancy in yeast BY4741and a strain lacking MSN2 and MSN4 responding to 20 min treatment with 0.4mM H2O2 GSE30898: Msn2p occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min) GSE30899: Gene expression dynamics in yeast BY4741 and a strain lacking MSN2 and MSN4 responding to 0.4mM H2O2 over time (0-60min) GSE30900: Nucleosome occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min) Refer to individual Series

ORGANISM(S): Saccharomyces cerevisiae S288c

SUBMITTER: Dana Huebert

PROVIDER: E-GEOD-30901 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Dynamic changes in nucleosome occupancy are not predictive of gene expression dynamics but are linked to transcription and chromatin regulators.

Huebert Dana J DJ Kuan Pei-Fen PF Keleş Sündüz S Gasch Audrey P AP

Molecular and cellular biology 20120221 9

The response to stressful stimuli requires rapid, precise, and dynamic gene expression changes that must be coordinated across the genome. To gain insight into the temporal ordering of genome reorganization, we investigated dynamic relationships between changing nucleosome occupancy, transcription factor binding, and gene expression in Saccharomyces cerevisiae yeast responding to oxidative stress. We applied deep sequencing to nucleosomal DNA at six time points before and after hydrogen peroxide ...[more]

PMID: 22354995

Similar Datasets

Gene expression dynamics in yeast BY4741 and a strain lacking MSN2 and MSN4 responding to 0.4mM H2O2 over time (0-60min)

Project description:Numerous factors have been implicated in regulating gene expression changes, including changes to nucleosome occupancy. Here we followed dynamic changes to nucleosome occupancy, gene expression and DNA binding of the transcription factor Msn2p genome-wide in yeast cells responding to hydrogen peroxide and reveal new relationships between regulators of stress-dependent gene expression in yeast. Gene expression was measured in response to 0.4mM H2O2 in the S288c derivative BY4741 in wild-type cells and cells lacking MSN2 and MSN4. A single replicate of a time course spanning from 4 to 60 minutes after treatment in each cell type. An additional 3 repliactes were collected from cells 30 minutes after treatment.

2012-06-17 | E-GEOD-30899 | biostudies-arrayexpress

Nucleosome occupancy in yeast BY4741and a strain lacking MSN2 and MSN4 responding to 20 min treatment with 0.4mM H2O2

Project description:Numerous factors have been implicated in regulating gene expression changes, including changes to nucleosome occupancy. Here we followed dynamic changes to nucleosome occupancy, gene expression and DNA binding of the transcription factor Msn2p genome-wide in yeast cells responding to hydrogen peroxide and reveal new relationships between regulators of stress-dependent gene expression in yeast. Nucleosome occupancy was measured in the S288c derivative BY4741 and a strain lacking MSN2 and MSN4. Nucleosomes were isolated from unstressed yeast and yeast treated for 20 min with 0.4mM H2O2. Nucleosomal samples were compared in a 2-color, competitive hybridization to sheared genomic DNA.

2012-06-17 | E-GEOD-30897 | biostudies-arrayexpress

Msn2p occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min)

Project description:Numerous factors have been implicated in regulating gene expression changes, including changes to nucleosome occupancy. Here we followed dynamic changes to nucleosome occupancy, gene expression and DNA binding of the transcription factor Msn2p genome-wide in yeast cells responding to hydrogen peroxide. and reveal new relationships between regulators of stress-dependent gene expression in yeast. Msn2p occupancy was measured in response to 0.4mM H2O2 in the S288c derivative BY4741 with an integrated myc-tagged Msn2p. A single replicate of the time course was performed with time points at 0, 4, 12, 20, 40 and 60 minutes after treatment.

2012-06-17 | E-GEOD-30898 | biostudies-arrayexpress

Cells pretreated with NaCl have an altered gene expression in response to H2O2.

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2011-09-17 | E-GEOD-32196 | biostudies-arrayexpress

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2012-11-01 | E-GEOD-40153 | biostudies-arrayexpress

eQTL Mapping of the Yeast Ethanol Response

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2014-10-02 | E-GEOD-54196 | biostudies-arrayexpress

Multiple means to the same end: The genetic basis of acquired stress resistance in yeast

Project description:A series of experiments comparing the gene expression response before and after 30 min 0.7M NaCl exposure in WT and mutant yeast strains. Mutant strains were identified as having a defect in acquiring resistance to H2O2 following mild NaCl pretreatment. The mutants in this study were taken from the Yeast Knock-Out Collection, mat a. Unstressed cells vs cells exposed to 0.7M NaCl for 30 min; 5 replicates for WT, 3 replicates for hog1∆, msn2∆, mck1∆, pde2∆, rim101∆, and 2 replicates for the remaining mutants.

2014-03-06 | E-GEOD-27819 | biostudies-arrayexpress

Nucleosome occupancy dynamics in yeast BY4741 responding to 0.4mM H2O2 over time (0-60 min)

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2012-06-18 | E-GEOD-30900 | biostudies-arrayexpress

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