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Links from GEO DataSets

Items: 20

1.

Identification of calcineurin-dependent, Crz1-independent gene expression changes in response to chronic KCl stress

(Submitter supplied) Gene expression was quantified in S. cerevisae cells after 48 hours of treatment with KCl. crz1 and crz1 cnb1 mutant strains were compared to allow the identification of calcineurin-dependent gene expression changes that are independent of the downstream transcription factor Crz1. We find that calcineurin has very little effect on gene expression in response to KCl.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25927
12 Samples
Download data: CSV
Series
Accession:
GSE254554
ID:
200254554
2.

Identification of calcineurin-dependent gene expression changes in response to chronic stress

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25927
60 Samples
Download data
Series
Accession:
GSE254555
ID:
200254555
3.

Identification of calcineurin-dependent, Crz1-independent gene expression changes in response to chronic CaCl2 stress

(Submitter supplied) Gene expression was quantified in S. cerevisae cells over a time course of three days of CaCl2 treatment to activate calcineurin. crz1 and crz1 cnb1 mutant strains were compared to allow the identification of calcineurin-dependent gene expression changes that are independent of the downstream transcription factor Crz1. We show that mitochondrial genes are downregulated in both geneotypes over time. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25927
24 Samples
Download data: CSV
Series
Accession:
GSE254552
ID:
200254552
4.

Identification of calcineurin-dependent gene expression changes in response to chronic CaCl2 stress

(Submitter supplied) Gene expression was quantified in S. cerevisae cells over a time course of three days of CaCl2 treatment to activate calcineurin. Wild type (WT) and cnb1 mutant strains were compared to allow the identification of calcineurin-dependent gene expression changes. We show that mitochondrial genes are downregulated, and ribosome biogenesis genes are upregulated, in both geneotypes over time.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL25927
24 Samples
Download data: CSV
Series
Accession:
GSE254551
ID:
200254551
5.

Extensive rewiring of the Calcineurin-Crz1 stress response network in the human fungal pathogen Cryptococcus neoformans

(Submitter supplied) Calcineurin is a highly conserved Ca2+/calmodulin-dependent serine/threonine-specific protein phosphatase that orchestrates cellular Ca2+ signaling responses. In Cryptococcus neoformans, calcineurin is activated by multiple stresses including high temperature, and is essential for stress adaptation and virulence. The transcription factor Crz1 is a major calcineurin effector in Saccharomyces cerevisiae and other fungi. more...
Organism:
Cryptococcus neoformans var. grubii H99
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21548
28 Samples
Download data: TAB
Series
Accession:
GSE93005
ID:
200093005
6.

Genome-wide recruitment profiling of transcription factor Crz1 in response to high pH stress

(Submitter supplied) Exposure of the budding Saccharomyces cerevisiae to an alkaline environment produces a robust transcriptional response involving hundreds of genes. Part of this response is triggered by an almost immediate burst of calcium that activates the Ser/Thr protein phosphatase calcineurin. Activated calcineurin dephosphorylates the transcription factor Crz1, which moves to the nucleus and binds to calcineurin/Crz1 responsive gene promoters. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17143
10 Samples
Download data: TXT
Series
Accession:
GSE79342
ID:
200079342
7.

Rewiring of cell cycle regulated gene expression by calcineurin

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21656
58 Samples
Download data: TAB
Series
Accession:
GSE115023
ID:
200115023
8.

Dynamics of calcineurin-regulated gene expression in the absence of Hog1 in S. cerevisiae

(Submitter supplied) Gene expression was quantified in crz1 hog1 delete S. cerevisae cells over a time course following calcineurin activation by CaCl2. Cells were pretreated with buffer or the calcineurin inhibitor FK506 to allow the identification of calcineurin-regulated genes. We show that calcineurin-dependent downregulation of G1/S genes is partly dependent on the osmostress-activated kinase Hog1.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21656
16 Samples
Download data: TXT
Series
Accession:
GSE115014
ID:
200115014
9.

Dynamics of calcineurin-regulated gene expression in S. cerevisiae

(Submitter supplied) Gene expression was quantified in crz1 delete S. cerevisae cells over a time course following calcineurin activation by CaCl2. Cells were pretreated with buffer or the calcineurin inhibitor FK506 to allow the identification of calcineurin-regulated genes. A strain with a calcineurin-resistant mutation in the transcription factor Hcm1 was also examined. We show that calcineurin activation leads to downregulation of a many clusters of cell cycle-regulated genes, including those expressed at the G1/S and G2/M transitions.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21656
42 Samples
Download data: TAB
Series
Accession:
GSE115013
ID:
200115013
10.

Yeast_16p_DNA_Feb_2010

(Submitter supplied) Constructed in our laboratory by arraying 6127 different PCR-amplified ORF from S. cerevisiae on UltraGAPS slides (Corning) using a MicroGrid TM II (BioRobotics) machine. Details on the generation of the PRC fragments and chip construction are provided in Alberola et al. Int Microbiol. 2004 7(3):199-206
Organism:
Saccharomyces cerevisiae
7 Series
52 Samples
Download data
Platform
Accession:
GPL10039
ID:
100010039
11.

Yeast_ALL DNA chip

(Submitter supplied) - Protocol: Constructed in our laboratory by arraying 6014 different PCR-amplified ORF from S. cerevisiae on UltraGAPS slides (Corning) using a MicroGrid TM II (BioRobotics) machine. Details on the generation of the PRC fragments and chip construction are provided in Alberola et al. Int Microbiol. 2004 7(3):199-206
Organism:
Saccharomyces cerevisiae
21 Series
126 Samples
Download data: TXT
Platform
Accession:
GPL4069
ID:
100004069
12.

Conserved and diverged functions of the calcineurin-activated Prz1 transcription factor in fission yeast

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Schizosaccharomyces pombe
Type:
Expression profiling by array; Genome binding/occupancy profiling by genome tiling array
Platforms:
GPL16187 GPL16235
18 Samples
Download data: GPR
Series
Accession:
GSE77761
ID:
200077761
13.

Genome-wide analysis of Prz1 in fission yeast reveals a novel inhibitory role in flocculation and a conserved activating role in cell wall organization [ChIP-chip]

(Submitter supplied) Gene regulation in response to intracellular calcium is mediated by the calcineurin-activated transcription factor Prz1 in the fission yeast Schizosaccharomyces pombe. Genome-wide studies of the Crz1 and CrzA fungal orthologs have uncovered numerous target genes involved in conserved and species-specific cellular processes. In contrast, very few target genes of Prz1 have been published. This paper identified an extensive list of genes using transcriptome and ChIP-chip analyses under inducing conditions of Prz1, including CaCl2, and tunicamycin treatment, as well as a ∆pmr1 genetic background. more...
Organism:
Schizosaccharomyces pombe
Type:
Genome binding/occupancy profiling by genome tiling array
Platform:
GPL16235
4 Samples
Download data: GPR
Series
Accession:
GSE77760
ID:
200077760
14.

Genome-wide analysis of Prz1 in fission yeast reveals a novel inhibitory role in flocculation and a conserved activating role in cell wall organization [expression]

(Submitter supplied) Gene regulation in response to intracellular calcium is mediated by the calcineurin-activated transcription factor Prz1 in the fission yeast Schizosaccharomyces pombe. Genome-wide studies of the Crz1 and CrzA fungal orthologs have uncovered numerous target genes involved in conserved and species-specific cellular processes. In contrast, very few target genes of Prz1 have been published. This paper identified an extensive list of genes using transcriptome and ChIP-chip analyses under inducing conditions of Prz1, including CaCl2, and tunicamycin treatment, as well as a ∆pmr1 genetic background. more...
Organism:
Schizosaccharomyces pombe
Type:
Expression profiling by array
Platform:
GPL16187
14 Samples
Download data: GPR
Series
Accession:
GSE77759
ID:
200077759
15.

Identification of calcineurin- and Crz1-dependent targets in Candida glabrata

(Submitter supplied) In order to identify calcineurin pathway-regulated genes, we compared the genome-wide expression profile of wild-type with FK506-treated wild-type, cna1, and crz1 mutants. We expect that FK506-treated wild-type will have similar expression profile with that of the cna1 mutant. In response to calcineurin inhibitor FK506, the up- and down-regulated by FK506 were 113 and 87 genes, respectively (cutoff q < 0.001). more...
Organism:
Nakaseomyces glabratus
Type:
Expression profiling by array
Platforms:
GPL14108 GPL10497
20 Samples
Download data: TXT
Series
Accession:
GSE31167
ID:
200031167
16.

Transcript levels of genes in both the wild type SN148 and the crz1/crz1 mutant with or without 0.2M CaCl2 treatment

(Submitter supplied) We report the expression levels of transcripts for two alleles of 6,211 genes in log-phase growing cells of the wild type SN148 and the crz1/crz1 with or without 0.2M CaCl2 treatment.We find that as compared to the wild type cells without 0.2M CaCl2 treatment, there are 828 genes upregulated in the wild type cells with 0.2M CaCl2 treatment.
Organism:
Candida albicans
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23041
4 Samples
Download data: XLSX
Series
Accession:
GSE123122
ID:
200123122
17.

Control and maintenance of β-cell identity and function by calcineurin/NFATc2 and ROS/PI3K signaling during metabolic and inflammatory stress

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL19057
14 Samples
Download data
Series
Accession:
GSE197710
ID:
200197710
18.

RNA-Seq to identify genes expressed by islets in response to metabolic and inflammatory stress and the role of CN/NFAT signaling in this response

(Submitter supplied) To identify genes expressed in islets in response to metabolic and inflammatory stress, we performed total RNA-Seq on isolated human islets exposed to IL-1β in the presence of high glucose. Gene ontology (GO) analysis of upregulated transcripts indicated enrichment of genes associated with cytokine signaling and proinflammatory responses. Multiple cytokines and chemokines were induced, and several key regulators of oxidative and ER stress responses were upregulated. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
6 Samples
Download data: CSV
Series
Accession:
GSE197685
ID:
200197685
19.

RNA-Seq to identify genes regulated by NFATc2 expression in islet stress response and function

(Submitter supplied) The downstream CN target NFATc2 is highest among enriched regulators of top induced genes in human islets exposed to high glucose and IL-1β. Thus, we used a conditional transgenic β-cell specific NFATc2 knock out (NFATc2βKO) mouse model to analyze requirements of NFATc2 to regulate genes in response to metabolic and inflammatory stress. Transcript analysis of NFATc2βKO islets exposed to high glucose and IL-1β revealed NFATc2-dependent downregulation of genes known to promote β-cell differentiation and upregulation of β-cell disallowed genes. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19057
8 Samples
Download data: CSV
Series
Accession:
GSE197684
ID:
200197684
20.

Genome-wide Response of Saccharomyces cerevisiae upon Arsenate Exposure

(Submitter supplied) Arsenic metalloid is a double-edge sword. On the one hand it is a very toxic and powerful carcinogen, and on the other it has been successfully used in the treatment of acute promyelocytic leukemia. In order to prevent the deleterious effects caused by arsenic compounds, almost all living organisms have developed mechanisms to eliminate it. In this study genome-wide response of S. cerevisiae to arsenic shows that this metal interferes with genes involved in the iron homeostasis including those encoding proteins that function in iron uptake, incorporation into Fe–S clusters, and more. more...
Organism:
Saccharomyces cerevisiae; Schizosaccharomyces pombe
Type:
Expression profiling by array
Platform:
GPL2529
15 Samples
Download data: CEL, DCP, TXT, XLS
Series
Accession:
GSE33427
ID:
200033427
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