GEO DataSets

(Submitter supplied) The yeast proteins Pkh1 and Pkh2 are functional counterparts of the mammalian 3-phosphoinositide-dependent protein kinase 1 (PDK1). Cells carrying simultaneous deletion in both genes, PKH1 and PKH2 are not viable, at least in some genetic backgrounds (Casamayor et al., 1999; Inagaki et al., 1999). Consequently, a different strategy is needed to study the function of these apparently redundant gene products. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL10039

8 Samples

Download data: GPR

(Submitter supplied) The yeast proteins Pkh1 and Pkh2 are functional counterparts of the mammalian 3-phosphoinositide-dependent protein kinase 1 (PDK1). Cells carrying simultaneous deletion in both genes, PKH1 and PKH2 are not viable, at least in some genetic backgrounds (Casamayor et al., 1999; Inagaki et al., 1999). Consequently, a different strategy is needed to study the function of these apparently redundant gene products. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL10039

4 Samples

Download data: GPR

(Submitter supplied) To ensure cell survival and growth during temperature increase, eukaryotic organisms respond with transcriptional activation that results in accumulation of proteins that protect against damage, and facilitate recovery. To define the global cellular adaptation response to heat stress, we performed a systematic genetic screen that yielded 277 yeast genes required for growth at high temperature. Of these, the Rpd3 histone deacetylase complex was enriched. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL7542

6 Samples

Download data: GPR

(Submitter supplied) Caloric restriction (CR) is the only non-genetic intervention to retard aging and increase longevity in a variety of species. It is important to understand the fundamental mechanism by which CR extends lifespan that remains elusive. Owing to well-established genomic tools and convenience of culture system, we used a single cell organism, Saccharomyces cerevisiae, to clarify the mechanisms of CR. In order to identify genes responsible for CR-mediated longevity, we performed microarray experiments across the longevity assurance time-points.

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae BY4741; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

24 Samples

Download data: CEL, CHP

(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

Download data

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

Download data

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

Download data

(Submitter supplied) Most mitochondrial proteins are synthesized as cytosolic precursor proteins before being imported into mitochondria. Cytosolic accumulation of mitochondrial precursors hazards cellular fitness and is associated with a growing number of diseases, but is not observed under physiological conditions. Individual mechanisms how cells avoid precursor accumulation outside mitochondria have recently been discovered, but their interplay and regulation have remained elusive. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19756

80 Samples

Download data: PDF, TXT

(Submitter supplied) The parent S. cerevisiae strain, BY4741, and specific gene deletions of the parent S.cerevisiae strain BY4741 were treated with 100uM NaAsO2 (AsIII) for 2h and compared to the untreated counterpart (yap1Δ vs. yap1Δ 2h 100uM AsIII, cad1Δ vs. cad1Δ 2h 100uMAsIII, rpn4Δ vs. rpn4Δ 2h 100uM AsIII, arr1Δ vs. arr1Δ 2h 100uM AsIII, parent vs. parent with 2h 100uM AsIII). The untreated specific deletion strain was also compared to the untreated parent strain in order to identify differential expression of genes due to the knockout alone. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platforms:

GPL884 GPL1474

40 Samples

Download data

(Submitter supplied) In this study we investigated the transcriptional response of the yeast Saccharomyces cerevisiae to potassium starvation. To this end yeast cells were grown for 60 min in media without potassium or in media with a standard potassium concnetration (50 mM KCl). Using Serial Analysis of Gene Expression (SAGE)-tag sequencing the effect of potassium starvation on the transcriptome was determined.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13821

8 Samples

Download data: TXT

(Submitter supplied) Transcriptional induction of Heat Shock Protein (HSP) genes in yeast is accompanied by dynamic changes in their 3D structure and spatial organization, yet the molecular basis for these phenomena remains unknown. Using chromosome conformation capture and single cell imaging, we show that genes transcriptionally activated by Heat Shock Factor 1 (Hsf1) specifically interact across chromosomes and coalesce into diffraction-limited intranuclear foci. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17342

4 Samples

Download data: TXT

(Submitter supplied) We performed ChIP-seq of Hsf1 under non heat shock, 5-minute heat shock and 120 minute heat shock conditions. We used the conditional chemical genetics approach known as “anchor away” (AA) to rapidly inactivate Hsf1. We coupled Hsf1-AA to and nascent RNA seq (NAC)-seq to define the genes whose expression depends on Hsf1 during heat shock.

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:

GPL19756 GPL17342

7 Samples

Download data: BW, TXT

(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

(Submitter supplied) The process of Saccharomyces cerevisiae spore germination includes breakage of dormancy, morphological changes and resumption of vegetative growth. We have determined the global transcriptional response during the first two hours of spore germination in response to rich growth medium and glucose alone, and identified possible transcription factors regulating the different transcriptional programs.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL13722

18 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) 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

Download data

(Submitter supplied) The SCH9 null strain has smaller cell size, grows at a slower rate and survives three times longer than wide-type yeast. This study aims to dissect the mechanisms that lead to the yeast life span extension of sch9-delta.

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

19 Samples

Download data: CEL

(Submitter supplied) In previous temporal studies, we found the anaerobic response was biphasic when cells growing in galactose medium were shifted from aerobiosis to anaerobiosis, consisting of an acute, transitory phase (<60 min) followed by a more chronic but delayed phase (> 1 generation), but largely monophasic (delayed, chronic phase only) when cells were shifted in glucose medium. Gene network and functional analyses revealed the acute phase was comprised of genes associated with the retooling of metabolism (respiro-fermentative to strictly fermentative) and balancing energy supply and demand. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL1535

227 Samples

Download data

(Submitter supplied) In previous temporal studies, we found the anaerobic response was biphasic when cells growing in galactose medium were shifted from aerobiosis to anaerobiosis, consisting of an acute, transitory phase (<60 min) followed by a more chronic but delayed phase (> 1 generation), but largely monophasic (delayed, chronic phase only) when cells were shifted in glucose medium. Gene network and functional analyses revealed the acute phase was comprised of genes associated with the retooling of metabolism (respiro-fermentative to strictly fermentative) and balancing energy supply and demand. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL1535

227 Samples

Download data