GEO DataSets

(Submitter supplied) Genotypic differences greatly influence susceptibility and resistance to disease. Understanding genotype-phenotype relationships requires that phenotypes be viewed as manifestations of network properties, rather than simply as the result of individual genomic variations. Genome sequencing efforts have identified numerous germline mutations associated with cancer predisposition and large numbers of somatic genomic alterations. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15648

449 Samples

Download data: CEL

(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) We transcriptional profiled four transcription factor knockout strains in S288C background growing in YNB media + 2% glucose to understand the link between mRNA levels and our measured C13 fluxes of amino acid biosynthesis. We conducted this analysis as a follow up to our work on the Gcn4p transcription factor. Keywords: genetic modification

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL5043

4 Samples

Download data: GPR

(Submitter supplied) The transcriptional data from an integrative analysis of transcriptional and metabolic stress responses that provides a more complete understanding of the mechanisms by which genetic regulatory circuits mediate metabolic phenotype. Keywords: stress response, genetic modification

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

6 Samples

Download data: CEL

(Submitter supplied) Although global analyses of transcription factor binding provide one view of potential transcriptional regulatory networks, regulation also occurs at levels distinct from transcription factor binding. Here, we use a genetic approach to identify targets of transcription factors in yeast and reconstruct a functional regulatory network. First, we profiled transcriptional responses in S. cerevisiae strains with individual deletions of 263 transcription factors. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL3588

269 Samples

Download data

(Submitter supplied) Understanding how gene expression programs are controlled requires identifying regulatory relationships between transcription factors and target genes. Gene regulatory networks are typically constructed from gene expression data acquired following genetic perturbation or environmental stimulus. Single-cell RNA sequencing (scRNAseq) captures the gene expression state of thousands of individual cells in a single experiment, offering advantages in combinatorial experimental design, large numbers of independent measurements, and accessing the interaction between the cell cycle and environmental responses that is hidden by population-level analysis of gene expression. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19756

12 Samples

Download data: MTX, TSV

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

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

23 Samples

Download data: CEL

(Submitter supplied) The impact on mRNA expression of the transcription factors Bas1, Pho2, Gcn4 and Gcr2p was investigated in the corresponding deletion strains during exponential growth in glucose minimal media batch cultures.

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

6 Samples

Download data: CEL

(Submitter supplied) The impact on mRNA expression of the transcription factors Bas1, Pho2, Gcn4 and Gcr2p was investigated in the corresponding deletion strains during exponential growth in glucose minimal media batch cultures.

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

5 Samples

Download data: CEL

(Submitter supplied) The impact on mRNA expression of the transcription factors Bas1, Pho2, Gcn4 and Gcr2p was investigated in the corresponding deletion strains during exponential growth in glucose minimal media batch cultures.

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

6 Samples

Download data: CEL

(Submitter supplied) Expression data from wild-type FY4 and GCR2 deletion strain. Impact of the transcription factor Gcr2p on mRNA expression was investigated in the corresponding deletion strain in exponentially growing glucose minimal medium batch cultures.

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

6 Samples

Download data: CEL

(Submitter supplied) Contains gene expression profiles of yeast single and double deletion mutants of gene-specific transcription factors. Genetic interactions were studied by comparing gene expression changes of double mutants with gene expression changes in the respective single mutants. Pairs of gene-specific transcription factors were chosen based on previous evidence for epistasis, including synthetic genetic interactions as well as common DNA binding.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL11232

287 Samples

Download data: TXT

(Submitter supplied) Deciphering gene regulatory mechanisms through the analysis of high-throughput expression data is a challenging computational problem. Previous computational studies have used large expression datasets in order to resolve fine patterns of coexpression, producing clusters or modules of potentially coregulated genes. These methods typically examine promoter sequence information, such as DNA motifs or transcription factor occupancy data, in a separate step after clustering. more...

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platforms:

GPL90 GPL2529

24 Samples

Download data: CEL, CHP, EXP, JPG

(Submitter supplied) The modification of Ser 5 is important for the relocalization of RNAP II upon NaCl stress. The CTD14 strains harbors a plasmid expressing RPB1 with 14 wild-type CTD repeats. The 5A strain carries a plasmid expressing a chimeric RPB1 in which the CTD was composed of 5 repeats of CTD-serine 5 substituted with alanine followed by 7 wild-type-sequenced repeats.

Organism:

Saccharomyces cerevisiae

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL9529

8 Samples

Download data: PAIR, TXT

(Submitter supplied) Transctriptome profiling of CTD-14 repeats, 2A, 5A mutants responding to 0.7N NaCl for 30mins. The study shows that phosphorylation at Ser5 sites plays a role in normal induction and repression of genes upon NaCl stress. The CTD14 strains harbors a plasmid expressing RPB1 with 14 wild-type CTD repeats. 5A strains carries a plasmid expressing a chimeric RPB1 in which the CTD was composed of 5 repeats of CTD-serine 5 substituted with Ala followed by 7 wild-type-sequenced repeats. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL15778

9 Samples

Download data: FTR

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

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array; Genome binding/occupancy profiling by genome tiling array

Platforms:

GPL15778 GPL9529 GPL17856

92 Samples

Download data: FTR, PAIR, TXT

(Submitter supplied) Transcriptome profiling of cdc14-3 and cdc14-3_snf1 mutants at non-permissive temp (35C) for 90min or 2hr followed by 30min NaCl stress. The experiment showed the aberrant cell cycle induction in cdc14-3 mutants upon NaCl response is abrogated with snf1 deletion in cdc14-3 background.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL15778

8 Samples

Download data: FTR

(Submitter supplied) Transcriptome profiling of yeast mutant strains responding to 0.7M NaCl treatment for 30 minutes. This study identified affected genes in each mutant and used it to computationally infer the complete NaCl-activated signaling network in yeast.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL17856

67 Samples

Download data: FTR

(Submitter supplied) We performed knockout and wild type expression experiments in yeast grown in soribtol to identify genes invovled in controling osmotic stress response.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platforms:

GPL14666 GPL13340

28 Samples

Download data: TXT

(Submitter supplied) A major goal of biology is the construction of networks that predict complex system behavior. We combine multiple types of molecular data, including genotypic, expression, transcription factor binding site (TFBS), and protein-protein interaction (PPI) data previously generated from a number of yeast experiments in order to reconstruct causal gene networks. Networks based on different types of data are compared using metrics devised to assess the predictive power of a network. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2883

9 Samples

Download data: TXT