Similar studies for GEO DataSets (Select 200161373) - GEO DataSets

Select item 2001613731.

Yeast cell fate control by temporal redundancy modulation of transcription factor paralogs

(Submitter supplied) Recent single-cell studies have revealed that yeast stress response involves multiple transcription factors that are temporally activated in pulses. However, it remains largely unclear whether and how these dynamic transcription factors temporally interact to regulate stress survival. Here we show that budding yeast cells can exploit the temporal relationship between paralogous general stress regulators, Msn2 and Msn4, during stress response. more...

Organism:: Nakaseomyces glabratus; Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL29410 GPL26171
36 Samples

Download data: CSV

Series

Accession:: GSE161373

ID:: 200161373

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Select item 2001355462.

The InsP7 phosphatase Siw14 regulates levels of inositol pyrophosphates and affects activity of general stress transcription factors Msn2 and Msn4

(Submitter supplied) Cells missing the InsP7 phosphatase Siw14 were exposed to osmotic and oxidative stress and the transcriptional response compared to that in a wild-type strain. The data show that the Siw14 delete strain has an elevated stress reponse in log growth conditions, but still mounts a robust response to acute stress.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL16244
5 Samples

Download data: GPR

Series

Accession:: GSE135546

ID:: 200135546

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Select item 2000420333.

The yeast PP2A-CDC55 phosphatase regulates the transcriptional response to hyperosmolarity stress by regulating Msn2 and Msn4 [Time course 2]

(Submitter supplied) The yeast PP2A-Cdc55 Serine/Threonine phosphatase regulates transcription under certain conditions. It is required for full activation of the environmental stress response mediated by the transcription factors Msn2 and Msn4. PP2A-Cdc55 contributes to sustained nuclear accumulation of Msn2 and Msn4 and extended chromatin recruitment under stress conditions such as hyperosmolarity stress. Transcript profiles of Msn2 and Msn4 double mutants are similar to cdc55 and the corresponding triple mutants. more...

Organism:: Saccharomyces cerevisiae W303; Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL16244
8 Samples

Download data: TXT

Series

Accession:: GSE42033

ID:: 200042033

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Select item 2000385654.

The yeast PP2A-CDC55 phosphatase regulates the transcriptional response to hyperosmolarity stress by regulating Msn2 and Msn4 [Time course 1]

(Submitter supplied) The yeast PP2A-Cdc55 Serine/Threonine phosphatase regulates transcription under certain conditions. It is required for full activation of the environmental stress response mediated by the transcription factors Msn2 and Msn4. PP2A-Cdc55 contributes to sustained nuclear accumulation of Msn2 and Msn4 and extended chromatin recruitment under stress conditions such as hyperosmolarity stress. Transcript profiles of Msn2 and Msn4 double mutants are similar to cdc55 and the corresponding triple mutants. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL9825
16 Samples

Download data: TXT

Series

Accession:: GSE38565

ID:: 200038565

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Select item 2000722635.

DynaMO, a package identifying transcription factor binding sites in dynamical ChIPSeq/RNASeq datasets, identifies transcription factors driving yeast ultradian and mammalian circadian cycles

(Submitter supplied) Biological processes are usually associated with genome-wide remodeling of transcription driven by transcription factors (TFs). Identifying key TFs and their spatiotemporal binding patterns are indispensable to understanding how dynamic processes are programmed. We present a computational method, dynamic motif occupancy (DynaMO), which exploits random forest modeling and clustering based enrichment analysis. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17342
30 Samples

Download data: FPKM_TRACKING, TXT

Series

Accession:: GSE72263

ID:: 200072263

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Select item 2001278516.

Genetic screen of the yeast environmental stress response dynamics uncovers a succession of regulatory phases

(Submitter supplied) Cells respond to environmental fluctuations by regulating multiple transcriptional programs. This response can be studied by measuring the effect of environmental changes on the transcriptome or the proteome of the cell at the end of the response. However, the dynamics of the response reflect working of the regulatory mechanisms in action. Here we utilized a fluorescent stress reporter gene to track the dynamics of protein production in yeast responding to environmental stress. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19756
144 Samples

Download data: CSV

Series

Accession:: GSE127851

ID:: 200127851

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Select item 2000118787.

Saccharomyces cerevisiae cells: W303-1A vs W303-1A delta MSN2, MSN4

(Submitter supplied) Transcriptional profiling of Saccharomyces cerevisiae cells comparing the W303-1A wildtype with the W303-1A double mutant for MSN2 and MSN4 during zinc deficient conditions Keywords: Genetic modification with zinc limitation

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Platform:: GPL6890
6 Samples

Download data: TXT

Series

Accession:: GSE11878

ID:: 200011878

Select item 2000018798.

aerobic_to_anaerobic_shift

(Submitter supplied) The wild-type (grown on galactose or glucose) or msn2/4 mutant (grown on galactose) strains were grown aerobically. At time zero (generation 0) the sparge gas was switched from air to O2-free N2 and samples were harvested after 0 (aerobic control), 0.04, 0.08, 0.19, and 2 generations of anaerobic growth. Keywords: time-course

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array

Datasets:: GDS2002 GDS2003
Platform:: GPL1535
45 Samples

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Series

Accession:: GSE1879

ID:: 200001879

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Select item 20039.

Msn2/4 role in metabolic remodeling during short-term anaerobiosis: time course

Analysis of catabolite-derepressed (galactose) wildtype JM43 and isogenic msn2/4 mutant KKY8 cells shifted to short-term anaerobiosis (2 generations). Msn2 and 4 are key stress factors. Results suggest Msn2/4 involvement in metabolic remodeling during acclimatization to short-term anaerobiosis.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array, log2 ratio, 2 genotype/variation, 2 protocol, 5 time sets

Platform:: GPL1535
Series:: GSE1879
30 Samples

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DataSet

Accession:: GDS2003

ID:: 2003

PubMed Full text in PMC Similar studies GEO Profiles Analyze DataSet

Select item 200210.

Metabolic state-dependent stress response to short-term anaerobiosis: time course

Analysis of catabolite-repressed (glucose) or derepressed (galactose) wildtype JM43 cells shifted from aerobiosis to anaerobiosis (2 generations). Results identify metabolic remodeling that occurs during acclimatization to short-term anaerobiosis in galactose but not in glucose.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by array, log2 ratio, 2 growth protocol, 2 protocol, 5 time sets

Platform:: GPL1535
Series:: GSE1879
30 Samples

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DataSet

Accession:: GDS2002

ID:: 2002

PubMed Full text in PMC Similar studies GEO Profiles Analyze DataSet

Select item 20007171211.

Combinatorial gene regulation by modulation of relative pulse timing

(Submitter supplied) We performed RNAseq with Saccharomyces cerevisiae cells under both transient and steady-state conditions to study the regulation of genes by two pulsatile transcription factors, Msn2 and Mig1. The transient data allowed us to identify combinatorial targets while the steady-state data was used to study target expression dependence on the relative pulse timing between the two TFs.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17342
28 Samples

Download data: TXT

Series

Accession:: GSE71712

ID:: 200071712

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Select item 20009780112.

Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Saccharomyces cerevisiae; Nakaseomyces glabratus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:: GPL22622 GPL13821
62 Samples

Download data: WIG

Series

Accession:: GSE97801

ID:: 200097801

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Select item 20009780013.

Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway [Cgla RNA-seq]

(Submitter supplied) In S. cerevisiae, the phosphate starvation (PHO) responsive transcription factors Pho4 and Pho2 are jointly required for induction of phosphate response genes and survival in phosphate starvation conditions. In the related human commensal and pathogen C. glabrata, Pho4 is required but Pho2 is dispensable for survival in phosphate-limited conditions and is only partially required for inducing the phosphate response genes. more...

Organism:: Nakaseomyces glabratus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL22622
8 Samples

Download data: CSV

Series

Accession:: GSE97800

ID:: 200097800

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Select item 20009779914.

Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway [Scer RNA-seq]

(Submitter supplied) In S. cerevisiae, the phosphate starvation (PHO) responsive transcription factors Pho4 and Pho2 are jointly required for induction of phosphate response genes and survival in phosphate starvation conditions. In the related human commensal and pathogen C. glabrata, Pho4 is required but Pho2 is dispensable for survival in phosphate-limited conditions and is only partially required for inducing the phosphate response genes. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13821
36 Samples

Download data: CSV

Series

Accession:: GSE97799

ID:: 200097799

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009779815.

Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway [Cgla ChIP-seq]

(Submitter supplied) In S. cerevisiae, the phosphate starvation (PHO) responsive transcription factors Pho4 and Pho2 are jointly required for induction of phosphate response genes and survival in phosphate starvation conditions. In the related human commensal and pathogen C. glabrata, Pho4 is required but Pho2 is dispensable for survival in phosphate-limited conditions and is only partially required for inducing the phosphate response genes. more...

Organism:: Nakaseomyces glabratus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL22622
9 Samples

Download data: WIG

Series

Accession:: GSE97798

ID:: 200097798

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009779716.

Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway [Scer ChIP-seq]

(Submitter supplied) In S. cerevisiae, the phosphate starvation (PHO) responsive transcription factors Pho4 and Pho2 are jointly required for induction of phosphate response genes and survival in phosphate starvation conditions. In the related human commensal and pathogen C. glabrata, Pho4 is required but Pho2 is dispensable for survival in phosphate-limited conditions and is only partially required for inducing the phosphate response genes. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13821
9 Samples

Download data: WIG

Series

Accession:: GSE97797

ID:: 200097797

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Select item 20017925817.

Life without stress protection – consequences of abrogating the heat shock response in S. cerevisiae

(Submitter supplied) The response to proteotoxic stresses such as heat shock is an ancient and ubiquitous transcriptional program allowing organisms to maintain protein homeostasis under changing environmental conditions. We depleted or deleted the three stress-specific transcription factors, Hsf1, Msn2 and Msn4, in S. cerevisiae and determined the effects on the transcriptome and proteome. Msn2/4 are responsible for a broad transcriptional reprogramming which includes i. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18085
60 Samples

Download data: TSV, TXT

Series

Accession:: GSE179258

ID:: 200179258

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Select item 20013365718.

Transcription profiling of the wild-type strain, mhy1Δ mutant and MHY1-overexpressing mutant strain.

(Submitter supplied) To explore the cellular functions of Mhy1, how Mhy1 promotes filamentation, we wanted to identify genes that are transcriptionally controlled by Mhy1. To this end, RNA-Seq analysis was conducted in cells of wild-type strain, mhy1Δ mutant and wild-type strain overexpressing MHY1 grown in filament-inducing YNDC7 medium.

Organism:: Yarrowia lipolytica

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21780
3 Samples

Download data: TXT

Series

Accession:: GSE133657

ID:: 200133657

PubMed Similar studies SRA Run Selector

Select item 20008189019.

Msn2 controls the yeast metabolic focus

(Submitter supplied) Msn2 is a transcription factor required for integration of environmental and metabolic signals. Msn2 is directly regulated by the carbon source sensing PKA and AMP pathways. Here we analyse the role of Msn2 for metabolic adjustment by using point mutants mimicking the dephosphorylated state.