GEO DataSets

Expression profiling of fhl1 single deletion mutant and ifh1 fhl1 double deletion mutant. Mutants generated from W303 strain. Results indicate that Ifh1p and Fhl1p function together to regulate the transcription of ribosomal protein genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, transformed count, 3 genotype/variation sets

Platform:

GPL90

Series:

GSE2096

6 Samples

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(Submitter supplied) Affymetrix experiment performed on RNA isolated from Wild type, FHL1 deleted and FHL1,IFH1 double deleted strains. Data aquired in duplicate. In S. cerevisiae the mRNAs from the 138 ribosomal protein (RP) genes are amongst the most abundant in the cell, and their transcription is regulated tightly so that they are the most prominent cluster in most transcriptome experiments. It has recently been observed that the proteins Fhl1p and Ifh1p are found almost exclusively at RP genes (Lee et al., Science, 298, 799-804, 2002;Jorgensen et al., Genes Dev, 18, 2491-2505 2004; Schawalder et al Nature in press; Rudra et al , EMBO J. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Dataset:

GDS1033

Platform:

GPL90

6 Samples

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(Submitter supplied) Fhl1-9myc ChIP-chip, YPD, OD600=0.8, 2 arrays with duplicate spotting of yeast intergenic regions. AND Ifh1-9myc ChIP-chip, cells grown in YPD, OD600=0.8, 2 arrays with duplicate spotting of yeast intergenic regions. Keywords = Fhl1 Keywords: other

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by array

Platform:

GPL1689

8 Samples

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(Submitter supplied) Array design -Platform: amino-silane coated glass slides (GAPS II, Corning) -S. cerevisiae intergenic regions amplified from S288C genomic DNA (ResGen) using the intergenic region primer oligonucleotides (ResGen) (Harismendy et al. EMBO J. 22(18): 4738-4747, 2003). The primers allow the amplification of the sequence located on either side of elements such as open reading frames, tRNAs, small nuclear RNAs, Ty elements, solo δ, etc. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL1695

15 Samples

Download data: TIFF

(Submitter supplied) We found ribosomal transcription factor Ifh1p is dynamically acetylated and phosphorylated in response to nutrient cues. ChIP-seq data revealed dynamic binding to ribosomal genes (RP) during the OX growth phase of the yeast metabolic cycle (YMC) when RP genes are highly induced, and weaker binding in the RC quiescent-like phase. Besides RP genes, our ChIP-seq data also reveals binding of Ifh1p to non-RP genes such as translation factors and metabolic genes.

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13272

4 Samples

Download data: WIG

(Submitter supplied) Expression analysis of BY4716(isogenic to S288c) and a wild isolate collected by R. Mortimer. Each strain was grown in culture 6 independent times and RNA from each culture was isolated. Each of these RNA samples was subjected to a dye-swap pair of arrays (except the "RM11" sample, which only got one array). All arrays used the same pool of reference BY4716 sample. In sample titles, "BY" alone signifies the reference sample and all other strings represent independent cultures. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Datasets:

GDS93 GDS94

Platform:

GPL118

23 Samples

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(Submitter supplied) Expression analysis of F1 haploid segregants from a cross between BY4716 (isogenic to S288c) and a wild isolate collected by R. Mortimer. Each segregant sample was subjected to a dye-swap pair of arrays. All arrays used the same pool of reference BY4716 sample. In sample titles, "BY" alone signifies the reference sample and all other strings represent segregants. All sample titles are of the form S1-S2. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Datasets:

GDS91 GDS92

Platform:

GPL118

80 Samples

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Genetic linkage analysis of global expression levels in a cross between two budding yeast strains. Identification of cis-acting and trans-acting loci that modulate a total of 570 genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, log ratio, 2 strain sets

Platform:

GPL118

Series:

GSE38

11 Samples

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Genetic linkage analysis of global expression levels in a cross between two budding yeast strains. Identification of cis-acting and trans-acting loci that modulate a total of 570 genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, log ratio, 2 strain sets

Platform:

GPL118

Series:

GSE38

12 Samples

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Genetic linkage analysis of global expression levels in a cross between two budding yeast strains. Identification of cis-acting and trans-acting loci that modulate a total of 570 genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, log ratio, 7 other sets

Platform:

GPL118

Series:

GSE37

40 Samples

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Genetic linkage analysis of global expression levels in a cross between two budding yeast strains. Identification of cis-acting and trans-acting loci that modulate a total of 570 genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, log ratio, 7 other sets

Platform:

GPL118

Series:

GSE37

40 Samples

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(Submitter supplied) Forkhead transcription factor FHL1 gene was required for replicative lifespan as well as cell proliferation in yeast. In this study, to see how Fhl1p determines the lifespan, we performed a DNA microarray analysis of heterozygous diploid strain deleted for FHL1 and, from the Fhl1p-target genes, screened for a lifespan-related gene. Transcriptomic profiles showed large increases and moderate decreases in transcripts in the fhl1/FHL1 mutant. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL4399

1 Sample

Download data: XLS

(Submitter supplied) Sgf73, a core component of the SAGA (Spt-Ada-Gcn5 Acetyltransferase) co-activator complex, is the yeast orthologue of ataxin-7, which in humans undergoes CAG ? polyglutamine repeat expansion to produce the neurodegenerative disease spinocerebellar ataxia type 7 (SCA7). We recently documented that deletion of SGF73 dramatically extends replicative lifespan (RLS) in yeast. To define the basis for Sgf73-mediated RLS extension, and to further explore the molecular function of Sgf73/ataxin-7 we performed ChIP-Seq for Sgf73 in yeast to identify its regions of DNA binding. more...

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13821

5 Samples

Download data: BED, TXT

(Submitter supplied) Abf1 and Rap1 are General Regulatory Factors that contribute to transcriptional activation of a large number of genes, as well as to replication, silencing, and telomere structure in yeast. In spite of their widespread roles in transcription, the scope of their functional targets genome-wide has not been previously determined. We have used microarrays to examine the contribution of these essential GRFs to transcription genome-wide, by using ts mutants that dissociate from their binding sites at 37 C. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Datasets:

GDS2533 GDS3198

Platform:

GPL90

12 Samples

Download data: CEL

Analysis of temperature sensitive Abf1 mutant cells subjected to a temperature of 37 degrees C to dissociate the mutant protein from its DNA binding sites. Results provide insight into the contribution of this general regulatory factor to transcription genome-wide.

Organism:

Saccharomyces cerevisiae

Type:

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

Platform:

GPL90

Series:

GSE6073

6 Samples

Download data: CEL

Analysis of temperature sensitive Rap1 mutant cells subjected to a temperature of 37 degrees C to dissociate the mutant protein from its DNA binding sites. Results provide insight into the contribution of this general regulatory factor to transcription genome-wide.

Organism:

Saccharomyces cerevisiae

Type:

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

Platform:

GPL90

Series:

GSE6073

6 Samples

Download data: CEL

(Submitter supplied) Mapping 3'ends of mRNAs from a reporter subject to no-go decay in an rps3 mutant background.

Organism:

Saccharomyces cerevisiae

Type:

Other

Platform:

GPL17342

7 Samples

Download data: XLSX

(Submitter supplied) Comparison of the transcriptomes of Saccharomyces cerevisiae wild type FY23 and a PDE2 deletion mutant DJ28. Keywords = PDE2 Keywords = Ras/cAMP pathway Keywords: other

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL422

10 Samples

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(Submitter supplied) There are about 800 genes in Saccharomyces cerevisiae whose transcription is cell-cycle regulated. Some of these form clusters of co-regulated genes. The 'CLB2' cluster contains 33 genes whose transcription peaks early in mitosis, including CLB1, CLB2, SWI5, ACE2, CDC5, CDC20 and other genes important for mitosis. Here we find that the genes in this cluster lose their cell cycle regulation in a mutant that lacks two forkhead transcription factors, Fkh1 and Fkh2. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platforms:

GPL2650 GPL51

26 Samples

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(Submitter supplied) The antitumor drug daunorubicin exerts some of its cytotoxic effects by binding to DNA and inhibiting the transcription of different genes. We analysed this effect in vivo transcriptome level using the budding yeast Saccharomyces cerevisiae as a model and sublethal concentrations of the drug to minimise general toxic effects. The effects of daunorubicin treatment on the yeast transcriptome are consistent with a model in which this drug impairs binding of different transcription factors by competing for their DNA binding sequences, therefore limiting their effectiveness and affecting the corresponding regulatory networks. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL9281

9 Samples

Download data: TXT