GEO DataSets

(Submitter supplied) The Arabidopsis Pathoarray 464_001 (GPL3638) was used to compare response of wild-type, rps2-101C (Bent et al., 1994; Mindorinos et al., 1994) and ndr1-1 (Century et al., 1995) to Pseudomonas syringae strain expressing avrRpt2. The two mutants are compromised in RPS2-mediated resistance but distinct difference between them has not been described. The results suggested that ndr1-1 affects a defense signaling pathway(s) in addition to the RPS2-dependent pathway, and indicate that the microarray is a powerful tool for systems analysis of the Arabidopsis disease signaling network. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL3638

8 Samples

Download data: GPR

(Submitter supplied) To evaluate technical reproducibility of Arabidopsis Pathoarray 464_001 (GPL3638), two slides were hybridized with labeled amplified RNA prepared from identical RNA. The RNA was prepared from Pseudomonas syringae ES4326- and 5mM MgSO4- injected samples (Psm 24h set C and mock 24h set C. See also GSE4429, GSM99793 and GSM99794). Keywords: Evaluation of a custom microarray performance

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL3638

4 Samples

Download data: GPR

(Submitter supplied) In order to protect themselves from pathogens, plants activate a battery of defense pathways, many of which involve changes in gene expression. We are interested in identifying plant genes that are differentially expressed in response to pathogen exposure, with the ultimate goal of studying the roles of these genes in plant defense. Keywords: disease response

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

2 Samples

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(Submitter supplied) Expression profiling of wild-type plants and mutants with defects in key components of the defense signaling network was used to model the Arabidopsis network 24 hours after infection by Pseudomonas syringae pv. maculicola strain Psm ES4326. Results using the Affymetrix ATH1 array revealed that expression levels of most pathogen-responsive genes were affected by mutations in coi1, ein2, npr1, pad4, or sid2. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL3638

92 Samples

Download data: GPR

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL5175 GPL5188

40 Samples

Download data: CEL

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5188

20 Samples

Download data: CEL

(Submitter supplied) Background:Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, are becoming increasingly popular as a tool capable of both expression profiling and finer scale isoform detection. Despite their intuitive appeal, relatively little is known about the performance of such tools, particularly in comparison with more traditional 3’ targeted microarrays. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

20 Samples

Download data: CEL

(Submitter supplied) We developed a novel platform for genome-wide gene expression analysis in any eukaryotic organism, that we coin SuperSAGE Array. The SuperSAGE Array is a microarray onto which oligonucleotides of 26 nucleotides corresponding to SuperSAGE tag sequences are directly synthesized. A SuperSAGE Array combines the advantages of the highly quantitative SuperSAGE expression analysis with the high-throughput microarray technology. more...

Organism:

Nicotiana benthamiana

Type:

Expression profiling by array

Platform:

GPL3679

3 Samples

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(Submitter supplied) We developed a novel platform for genome-wide gene expression analysis in any eukaryotic organism, that we coin SuperSAGE Array. The SuperSAGE Array is a microarray onto which oligonucleotides of 26 nucleotides corresponding to SuperSAGE tag sequences are directly synthesized. A SuperSAGE Array combines the advantages of the highly quantitative SuperSAGE expression analysis with the high-throughput microarray technology. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL3678

2 Samples

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(Submitter supplied) SuperSAGE Array was produced by on-chip synthesis of 26-base long oligonucleotides exactly corresponding to the tag sequences (tag probe) by NimbleGen's photolithography technology6. Oligonucleotides carrying two-base mismatches in positions no. 7 and 13 of 26-base SuperSAGE tag sequences were also synthesized on the array.

Organism:

Nicotiana benthamiana

1 Series

3 Samples

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(Submitter supplied) SuperSAGE Array was produced by on-chip synthesis of 26-base long oligonucleotides exactly corresponding to the tag sequences (tag probe) by NimbleGens photolithography technology6. Oligonucleotides carrying two-base mismatches in positions no. 7 and 13 of 26-base SuperSAGE tag sequences were also synthesized on the array.

Organism:

Oryza sativa

1 Series

2 Samples

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(Submitter supplied) Arabidopsis plants, ecotype Columbia, were sprayed with surfactant alone (0.01% Silwet) or surfactant and 1mM salicylic acid until all leaves were wet, 3 to 4 weeks after germination (before flowering). Leaves were harvested and frozen in liquid nitrogen. Three biological replicates were obtained over a period of 6 months. For each replicate, RNA was extracted using standard phenol/chloroform protocol and biotin-labeled cRNA was synthesized. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS2207

Platform:

GPL198

6 Samples

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Analysis of leaves 2 hours after treatment with salicylic acid (SA) which induces systemic acquired resistance (SAR). SA-induced genes examined for the presence of neighboring putative binding sites for the transcription factor TGA2. Results provide insight into role of TGA factors in triggering SAR

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, transformed count, 2 agent sets

Platform:

GPL198

Series:

GSE3984

6 Samples

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(Submitter supplied) new and stripped microarrays Keywords: reuse of Agilent custom 8.4 in situ microarrays

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1868

10 Samples

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(Submitter supplied) new and stripped chips Keywords: reuse of Affymetrix GeneChips U133 Plus 2.0

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

4 Samples

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(Submitter supplied) We measured expression level changes associated with the introduction of the F plasmid in 2 bacterial host strains (MG1655 and DH5alpha) Keywords: parallel sample

Organism:

Escherichia coli K-12; Escherichia coli

Type:

Expression profiling by array

Platform:

GPL73

8 Samples

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(Submitter supplied) Microarrays have been widely used for the analysis of gene expression and several commercial platforms are available. The combined use of multiple platforms can overcome the inherent biases of each approach, and may represent an alternative that is complementary to RT-PCR for identification of the more robust changes in gene expression profiles. In this paper, we combined statistical and functional analysis for the cross platform validation of two oligonucleotide-based technologies, Affymetrix (AFFX) and Applied Biosystems (ABI), and for the identification of differentially expressed genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL1426 GPL570

12 Samples

Download data: CEL

(Submitter supplied) Red light can affect a variety of responses in Arabidopsis. We characterize the early gene expression patterns of seedlings exposed to 1 hour of red light using a small sized sample of 5, 7-day-old seedlings and also performed dark controls. Methods that were developed for tissue extraction and labeling for microarrays were tested using these samples Keywords: 1 time point

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

2 Samples

Download data: CEL

(Submitter supplied) Study of atherosclerosis using 51 human coronary artery segments Keywords: other

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1597

Platform:

GPL1790

51 Samples

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(Submitter supplied) Cardiovascular specific human oligonucleotide array (20433 unique probes) developed between Agilent Technologies and the Quertermous Lab at Stanford University.

Organism:

Homo sapiens

1 DataSet

1 Series

51 Samples

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