GEO DataSets

(Submitter supplied) We analysed the transcriptional effects of the TOR2-controlled signaling function using a genome-wide microarray approach in yeast. In S. cerevisiae, TOR2 has two essential signaling functions. One, shared with TOR1, is required for translation initiation, transcription, and cell growth in response to the presence of nutrients. The second is unique to TOR2, and functions in cell-cycle-dependent actin polarization and possibly in transcription. more...

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Dataset:

GDS922

Platform:

GPL90

12 Samples

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Comparison of total transcription profiles for temperature-sensitive TOR2 mutant strain SH121 to its isogenic wild type counterpart SH100. Results indicate that TOR2 inactivation leads to enhanced transcription of Gcn4-controlled target genes.

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array, count, 2 genotype/variation, 3 time sets

Platform:

GPL90

Series:

GSE1814

12 Samples

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(Submitter supplied) To identify genes regulated by the AGC kinases Ypk1 and Ypk2

Organism:

Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL14789

9 Samples

Download data: GPR

(Submitter supplied) We studied the transcriptional profile in yeast cells in response to heterologous expression of mammalian activated AKT1

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

6 Samples

Download data: CEL

(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

(Submitter supplied) see Vodkin et al., BMC Genomics 5:73 (2004) for details of cDNAs represented on the arrays and Thibaud-Nissen et al., Plant Physiol 132:118-136 (2003); Zou et al. Mol Plant Microbe Interat 18:1161-1174 (2005); Zabala and Vodkin, Plant Cell 17: 2619-2632 (2005) for use of cDNA arrays in soybean. Protocol: PCR amplified cDNA inserts printed with Genemachines Omnigrid

Organism:

Glycine max

6 Series

82 Samples

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(Submitter supplied) see Vodkin et al., BMC Genomics 5:73 (2004) for details of cDNAs represented and Thibaud-Nissan, et al., Plant Physiol 132: 118-136 (2003); and Zabala and Vodkin, Plant Cell 17: 2619-2632 (2005) for use of cDNA arrays in soybean Protocol: amplified cDNAs printed with Genemachines Omnigrid

Organism:

Glycine max

12 Series

191 Samples

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(Submitter supplied) RNA from vastus lateralis of healthy young (21-31 year old) and older (62-77 year old) men. Signal data normalized to mean intensity of 500 over all probes sets. Analysis done with Affymetrix Microarray Suite 5.0 software. Keywords: other

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS156

Platform:

GPL91

12 Samples

Download data: CEL

Comparison of gene expression in vastus lateralis skeletal muscle biopsies in healthy young (21-31 year old) and older (62-77 year old) men. Sample RNAs isolated from individuals and pooled into groups of 8.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 age sets

Platform:

GPL91

Series:

GSE80

12 Samples

Download data: CEL

(Submitter supplied) Primary cultures of human trophoblasts were established from normal, term placenta. Cells were treated five hours after plating. This sample was treated with 1 uM GW7845. RNA was extracted after 48 hours of treatment using Tri-reagent. Each sample was pooled from three individual placentas prior to target generation. Targets were produced using standard Affymetrix procedures from 30ug of total RNA. Keywords: parallel sample

Organism:

Homo sapiens

Type:

Expression profiling by array

5 related Platforms

75 Samples

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(Submitter supplied) Multiple commercial microarrays for measuring genome-wide gene expression levels are currently available, including oligonucleotide and cDNA, single- and two-channel formats. This study reports on the results of gene expression measurements generated from identical RNA preparations that were obtained using three commercially available microarray platforms. RNA was collected from PANC-1 cells grown in serum-rich medium and at 24 h following the removal of serum. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL8300 GPL2893 GPL875

30 Samples

Download data: CEL, TXT

(Submitter supplied) Purified DNA of some 4600 overlapping shotgun clones in vector pCR-BluntII-TOPO (Invitrogen, Groningen, The Netherlands) was used as template in standard PCR amplification with the vector-specific primer pair d(TCGGATC CACTAGTAACG) and d(GGCCGCCAGTGTGATG). Shotgun cloning had been performed according to the procedures described by the vector's manufacturer. Each PCR reaction was individually checked by agarose gel electrophoresis. more...

Organism:

Pseudomonas putida

1 Series

6 Samples

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(Submitter supplied) Knowledge of the biological and technical variation for fermentor-grown Aspergillus niger cultures is needed to design DNA microarray experiments properly. We cultured A. niger in batch-operated fermentor vessels and induced with D-xylose. Transcript profiles were followed in detail by qPCR for 8 genes. A variance components analysis was performed on these data to determine the origin and magnitude of variation within each process step for this experiment. more...

Organism:

Aspergillus niger; Aspergillus niger CBS 513.88

Type:

Expression profiling by array

Platform:

GPL6758

7 Samples

Download data: CEL

(Submitter supplied) The number of methods for pre-processing and analysis of gene expression data continues to increase, often making it difficult to select the most appropriate approach. We present a simple procedure for the comparative estimation of a variety of methods for microarray data pre-processing and analysis. Our approach is based on the use of real microarray data in which controlled fold changes are introduced into 20% of the data to provide a metric for comparison with the unmodified data. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL6884 GPL2700

36 Samples

Download data: TXT