GEO DataSets

(Submitter supplied) We obtained RNA polymerase II occupancy profile across the genome of WT and isw1Δ Saccharomyces cerevisiae strains grown under normal conditions or after ER stress induction for 2H with1 µg/mL tunicamycin (Tm).

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13821

4 Samples

Download data: BW

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

Organism:

Methanocaldococcus jannaschii; Saccharomyces cerevisiae

Type:

Expression profiling by array

4 related Platforms

42 Samples

Download data

(Submitter supplied) Binding of in vitro synthesized HAC1 mRNA was studied using protein microarray. 3 replicates, plus 3 reverse dye replicates An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. is_reverse: no: HAC1 mRNA Cy5 labeled; yes: HAC1 mRNA Cy3 labeled

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platforms:

GPL14893 GPL10696

6 Samples

Download data

(Submitter supplied) Yeast strains expressing either GST-tagged or untagged Ypt1 were grown in either normal media or in media treated with 10mM DTT, to induce UPR A replicate experimental design type is where a series of replicates are performed to evaluate reproducibility or as a pilot study to determine the appropriate number of replicates for a subsequent experiments. GeneticModification: GST tagged/untagged YPT1 Media: DTT present/absent in media

Organism:

Methanocaldococcus jannaschii; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL14894

16 Samples

Download data

(Submitter supplied) Strains lacking indicated genes were transformed with GST-YPT1. Ypt1p was IPd with anti-GST ab and associated rna was analyzed. A genetic modification design type is where an organism(s) has had genetic material removed, rearranged, mutagenized or added, such as knock out. GeneticModification: gene deleted from parent strain

Organism:

Saccharomyces cerevisiae; Methanocaldococcus jannaschii

Type:

Expression profiling by array

Platform:

GPL14894

8 Samples

Download data

(Submitter supplied) IP of candidate adaptor Ada5/Gdi1, tagged with HA, versus Mock (untagged) replicates. IP associated RNA was assayed. A replicate experimental design type is where a series of replicates are performed to evaluate reproducibility or as a pilot study to determine the appropriate number of replicates for a subsequent experiments. GeneticModification: HA-tagged candidate gene or control

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL10698

10 Samples

Download data

(Submitter supplied) Expression profiling of Ypt1/Sec12 knockdown versus isogenic parental wild type BY4741: A genetic modification design type is where an organism(s) has had genetic material removed, rearranged, mutagenized or added, such as knock out.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL10698

4 Samples

Download data

(Submitter supplied) Cellular stress response pathways often require transcription-based activation of gene expression to promote cellular adaptation. However, whether general mechanisms exist for stress-responsive gene down-regulation is less clear. A recently defined gene regulatory mechanism enables both up- and down-regulation of protein levels for distinct gene sets by the same transcription factor (TF) via coordinated induction of canonical mRNAs and long undecoded transcript isoforms (LUTIs). more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL17342

34 Samples

Download data: TXT

(Submitter supplied) Ribosome-footprint profiling provides genome-wide snapshots of translation, but technical challenges can confound its analysis. Here, we use improved methods to obtain ribosome-footprint profiles and mRNA abundances that more faithfully reflect gene expression in Saccharomyces cerevisiae. Our results support proposals that both the beginning of coding regions and codons matching rare tRNAs are more slowly translated. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

Platform:

GPL13821

3 Samples

Download data: TXT

(Submitter supplied) The ARV1-encoded protein mediates sterol transport from the endoplasmic reticulum (ER) to the plasma membrane. Yeast ARV1 mutants accumulate multiple lipids in the ER and are sensitive to pharmacological modulators of both sterol and sphingolipid metabolism. Using fluorescent and electron microscopy, we demonstrate sterol accumulation, subcellular membrane expansion, elevated lipid droplet formation and vacuolar fragmentation in ARV1 mutants. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

5 related Platforms

14 Samples

Download data: CEL, TXT

(Submitter supplied) eIF2α phosphorylation-mediated translational regulation is crucial for global translation repression by various stresses, including the unfolded protein response (UPR). However, translational control during UPR has not been demonstrated in yeast. This study investigated ribosome ubiquitination-mediated translational controls during UPR. Tunicamycin-induced ER stress enhanced the levels of ubiquitination of the ribosomal proteins uS10, uS3 and eS7. more...

Organism:

Saccharomyces cerevisiae

Type:

Other; Expression profiling by high throughput sequencing

Platform:

GPL21656

25 Samples

Download data: TXT

(Submitter supplied) Investigation of whole genome gene expression level changes in response to tunicamycin, an inhibitor of protein N-glycosylation, in Candida glabrata CBS138 delta-cnb1, delta-crz1, delta-slt2, and delta-ire1 mutants, compared to the wild-type strain. The mutations engineered into these strains render them hypersusceptible to tunicamycin. The mutants analyzed in this study are further described in Miyazaki, T. more...

Organism:

Nakaseomyces glabratus

Type:

Expression profiling by array

Platform:

GPL13707

15 Samples

Download data: CALLS, PAIR

(Submitter supplied) Homeostatic control mechanisms are essentil to life. One such mechanism, the unfolded protein response (UPR) operates in all eukarytic cells to adjust protein folding capacity of the endoplasmic reticulum (ER) according to need. UPR induction in all eurkarytic cells to date involves Ire1 (kinase/endonuclease transmembrane protein) mediated a non-convential splicing of Hac1/XBP1 mRNA, encoding for a potent transcription factor. more...

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13988 GPL9453

15 Samples

Download data: WIG

(Submitter supplied) All samples are of the genotype listed in the title (e.g. W303, delta-hac1, etc.). Samples treated with DTT were treated for 60 min with 6 mM DTT. Samples with 'dT' in the title were concurrently shifted from 23°C to 37°C; otherwise, samples were grown at 30°C. All array data is from two independent experiments, with data listed as two files designated "A" and "B" , except for the "ADH1pro DTT" expt, which was performed once. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Dataset:

GDS750

Platform:

GPL999

13 Samples

Download data

Strains expressing HAC1 under various promoters were grown at 30°C, or shifted from 23°C to 37°C, and treated with 6mM DTT or tunicamycin for 60 minutes. DTT and tunicamycin activate the unfolded protein response (UPR) which is regulated by Hac1p.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, log ratio, 2 agent, 5 genotype/variation, 2 temperature sets

Platform:

GPL999

Series:

GSE1119

13 Samples

Download data

(Submitter supplied) We measured steady-state mRNA levels by microarray hybridization, comparing WT, (delta)ire1, (delta)gcn4, and (delta)gcn2 cells treated with 2 mM DTT for 30 min (by which time the UPR is qualitatively complete) to untreated samples of the same genotype. WT cells were taken as a positive control for UPR induction, and (delta)ire1 cells as a negative control. Fold change in expression of a given gene was computed as the ratio of mRNA level in the treated sample to the level in an untreated sample of the same genotype. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL1001

12 Samples

Download data

(Submitter supplied) array data accompanying Patil et al. (2004)

Organism:

Saccharomyces cerevisiae

1 Series

12 Samples

Download data

(Submitter supplied) Cryptococcus neoformans poses a great threat to human communities, given that it quickly becomes resistant to available antifungal drugs. Herein, a conserved chromatin remodeler, Isw1, is shown to function as a master transcriptional modulator of genes responsible for multidrug resistance. It reciprocally controls drug resistance, and cells with disrupted ISW1 demonstrate profound resistance to fluconazole, ketoconazole, 5-fluorocytosine and 5-fluorouracil. more...

Organism:

Cryptococcus neoformans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28713

6 Samples

Download data: TXT

(Submitter supplied) Cryptococcus neoformans poses a great threat to human communities, given that it quickly becomes resistant to available antifungal drugs. Herein, a conserved chromatin remodeler, Isw1, is shown to function as a master transcriptional modulator of genes responsible for multidrug resistance. It reciprocally controls drug resistance, and cells with disrupted ISW1 demonstrate profound resistance to fluconazole, ketoconazole, 5-fluorocytosine and 5-fluorouracil. more...

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28230

6 Samples

Download data: TXT