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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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

ABSTRACT: 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 to reveal new relationships between regulators of stress-dependent gene expression. Nucleosome occupancy was measured by MNase-Seq in response to .4mM H2O2 in the S288c yeast derivative BY4741. A single replicate was performed for the time-course experiment with time points at 0, 4, 12, 20, 40 and 60 minutes after treatment.

ORGANISM(S): Saccharomyces cerevisiae S288c

SUBMITTER: Dana Huebert

PROVIDER: E-GEOD-30900 | 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

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

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2012-06-17 | E-GEOD-30901 | 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

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

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

2012-06-18 | GSE30898 | GEO

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

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

2012-06-18 | GSE30900 | GEO

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

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 maps in S. cerevisiae at varying phosphate concentrations

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2011-08-01 | E-GEOD-26392 | biostudies-arrayexpress

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2013-01-06 | E-GEOD-34923 | biostudies-arrayexpress

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