GEO DataSets

(Submitter supplied) Within a GRO experiment, samples for Transcription rate (TR) analysis were taken at 0, 4, 11, 16, 26 and 40 minutes after heat stress (from 25ºC to 37ºC) and subjected to run-on. Analysis was done in filters also used for RA analysis of aliquots from the same cultures.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4566

24 Samples

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(Submitter supplied) We analyzed the effect of the elimination of the cap-binding protein Cbc1 on transcription rate and mRNA amount during the response to osmotic stress using the Genomic Run-on assay

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array; Other

Platform:

GPL13620

20 Samples

Download data: TXT

(Submitter supplied) We study the transcriptional response of wt S. cerevisiae cells to alkaline pH by using a genome-wide method (Genomic run-on) that allows for the determination of transcription rates (TR) and mRNA amounts (RA) for each gene. The stabilities of the mRNAs can be calculated from the TR and RA data.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL13620

42 Samples

Download data: TXT

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

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4566

42 Samples

Download data

(Submitter supplied) Within a GRO experiment, samples for mRNA amount (RA) were taken at 0, 4, 11, 16, 26 and 40 minutes after heat stress (from 25ºC to 37ºC). Analysis was done in filters also used for Transcription rate (TR) analysis of aliquots from the same cultures.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4566

24 Samples

Download data

(Submitter supplied) Transcription rate (TR) analysis of W303-1a yeast strain growing in exponential phase in YPD subjected to terbutyl stress Keywords: time course

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4565

24 Samples

Download data

(Submitter supplied) mRNA amount analysis of W303-1a yeast strain growing in exponential phase in YPD subjected to terbutyl stress Keywords: time course

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4565

24 Samples

Download data

(Submitter supplied) Timecourse analyses (0 to 850 min) of exponentially growing BQS252 yeast after shift from YPD to YPGal galactose medium. Total RNA in vivo labeled by run-on, or cDNA labelling using random decamers included. Genomic DNA also examined. Keywords: other

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL772

42 Samples

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(Submitter supplied) Time course after the addition of the transcriptional inhibitor thiolutin at 3 and 10 µg/mL to an exponential growing culture of S. cerevisiae in YPD. Keywords: time course, mRNA stability analysis

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL3763

6 Samples

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(Submitter supplied) Time course after the addition of the transcriptional inhibitor thiolutin at 3µg/mL to an exponential growing culture of S. cerevisiae in YPD. Keywords: time course, mRNA stability analysis

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL3763

5 Samples

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(Submitter supplied) Effect of hsf1-R206S/F256S mutation on heat-induced transcription of genes is analyzed. Total RNA was isolated from HSF1 wild type and hsf1-R206S/F256S cells grown at 39oC for 15 min. Probe cDNA was primed by oligo(dT) and was synthesized in the presence of 33P-dCTP. Hybridization was carried out using the same GF100 GeneFilter. Value higher than 30 in HSF1 wild type cells is confident. Values from duplicate experiments were averaged, and the average fold changes were calculated. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Dataset:

GDS1073

Platform:

GPL205

4 Samples

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Analysis of a heat shock transcription factor 1 (HSF1) temperature sensitive mutant strain subjected to heat stress at 33 degrees C. HSF1 mutant contains an arginine to serine and a phenylalanine to serine substitution at residues 206 and 256 respectively. Results identify novel targets of HSF1.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, transformed count, 2 genotype/variation sets

Platform:

GPL205

Series:

GSE2103

4 Samples

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(Submitter supplied) We measured mRNA levels of two yeast species (S.cerevisiae and S.paradoxus) and their hybrid, at four time-points (0, 20min, 40min, 60min) following transcription arrest using 1,10-Phenantroline (150ug/ml). This data was used to infer mRNA degradation rates of orthologous genes, study the divergence of mRNA degradation rates and the contribution of cis and trans mutations.

Organism:

Saccharomyces cerevisiae x Saccharomyces paradoxus; Saccharomyces cerevisiae; Saccharomyces paradoxus

Type:

Expression profiling by array

Platform:

GPL13449

16 Samples

Download data: TXT

(Submitter supplied) We have taken five different time points of a Yeast culture in exponential grow in rich medium, each one elapsed ten minutes from de previous one (from OD600 0.36 to 0.47). Then, for each time point we have measured the transcription rates (TR) and mRNA amounts (RA) for all the genes using the Genomic run-on (GRO) technique .

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL6727

39 Samples

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(Submitter supplied) The budding yeast Saccharomyces cerevisiae alters its gene expression profile in response to a change in nutrient availability. The PHO-system is a well-studied case in the transcriptional regulation responding to nutritional changes in which a set of genes (PHO genes) is expressed to activate phosphate (Pi) metabolism for adaptation to Pi-starvation. Pi-starvation triggers an inhibition of Pho85 kinase, leading to migration of unphosphorylated Pho4 transcriptional activator into the nucleus enabling expression of PHO genes. more...

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL3723

8 Samples

Download data: CEL

(Submitter supplied) Protein homeostasis and cellular fitness in the presence of proteotoxic stress is promoted by heat shock factor 1 (HSF1), which controls basal and stress-induced expression of molecular chaperones and other targets. The major heat shock proteins Hsp70 and Hsp90 in turn participate in a negative feedback loop that ensures appropriate coordination of the heat shock response with environmental conditions. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21656

15 Samples

Download data: TXT

(Submitter supplied) The goal of the project was to study synthesis rates (SR) and mRNA levels (RA) genome wide in a series of aneuploid strains to check for the posible variation in SR and RA in the genes of the aneuploid chromosome withe regard to the rest of the genome. We used Genomic Run-On (GRO) experiment to mesaure SR and RA values.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL24366

24 Samples

Download data: TXT

(Submitter supplied) In order to maintain the appropriate level of mRNA it is necessary coordinate simultaneously all the steps along the mRNA life cycle. It has been shown that several factors act in the regulation of gene expression as global coordinators. Thus, some kind of information is transferred from the nucleus to the cytoplasm, imprinted in the mRNA. In this way, it is conceivable the existence of mechanisms that ensure the balance between mRNA synthesis and degradation through the information flow from the cytoplasm to the nucleus and vice versa, as a crosstalk among both process to ensure the proper mRNA homeostasis in the cell. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL13620

18 Samples

Download data: TXT

(Submitter supplied) A universal feature of the response to stress and nutrient limitation is transcriptional upregulation of genes encoding proteins important for survival. Interestingly, under many of these conditions overall protein synthesis levels are reduced, thereby dampening the stress response at the level of protein expression. For example, during glucose starvation in yeast, translation is rapidly and reversibly repressed, yet transcription of many stress- and glucose-repressed genes is increased. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13821 GPL9377

22 Samples

Download data: TXT

(Submitter supplied) The Ccr4-Not complex is a major regulator of stress responses that controls gene expression at multiple levels, from transcription to mRNA decay. Ccr4, a core subunit of the complex, is the main cytoplasmic deadenylase in Saccharomyces cerevisiae, however its mRNA targets have not been mapped on a genome-wide scale. Here we describe a genome-wide approach, RNA immunoprecipitation-high throughput sequencing (RIP-seq), to identify the RNAs bound to Ccr4, and two proteins that associate with it, Dhh1 and Puf5. more...

Organism:

Saccharomyces cerevisiae

Type:

Other

Platform:

GPL15263

14 Samples

Download data: TXT