GEO DataSets

(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) 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) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and in house platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

9 related Platforms

91 Samples

Download data: CEL, TIFF

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3734

20 Samples

Download data: TIFF

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3761

5 Samples

Download data

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3760

20 Samples

Download data: TIFF

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3757

5 Samples

Download data

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3759

5 Samples

Download data

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL3758

5 Samples

Download data

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL922

5 Samples

Download data

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL81

16 Samples

Download data: CEL

(Submitter supplied) Gene expression microarrays have made a profound impact in biomedical research. The diversity of platforms and analytical methods has made comparison of data from multiple platforms very challenging. In this study, we describe a framework for comparisons across platforms and laboratories. We have attempted to include nearly all the available commercial and “in-house” platforms. Using probe sequences matched at the exon level improved consistency of measurements across the different microarray platforms compared to annotation-based matches. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL2995

10 Samples

Download data

(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:

GPL570 GPL1426

12 Samples

Download data: CEL

(Submitter supplied) Exonic profiling is an emerging topic in disease-associated transcriptome analysis, but is still facing major limitations. In this study, we performed a microarray-based analysis of the transcriptome at the exon level of mouse primary mammary tumors having different abilities to give rise to metastases. First, we developed a bioinformatics platform and used a stringent algorithm to identify 679 genes with differentially expressed exons in primary tumors of the 4T1 mouse model of mammary tumor progression. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6193

12 Samples

Download data: CEL

(Submitter supplied) Both in situ synthesized long oligo arrays from Agilent Technologies and short oligo arrays from Affymetrix were used to meausre differential gene expression in RNA samples generated from (1) human neural stem cells treated with vehicle (EtOH, 0.01%) and tert-butylhydroquinone (tBHQ, 20µM) for 24h, and (2) neuroblastoma cells treated with vehicle (EtOH, 0.01%) and tert-butylhydroquinone (tBHQ, 10µM) for 24h. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL8300 GPL885

20 Samples

Download data

(Submitter supplied) DNA microarray technology allows the analysis of genome structure and dynamics at genome-wide scale. Expression microarrays (EMA) contain probes for annotated open reading frames (ORF) and are widely used for the analysis of differential gene expression. By contrast, tiling microarrays (TMA) have a much higher probe density and provide unbiased genome-wide coverage. The purpose of this study was to develop a protocol that would take advantage of the high resolution of TMAs for quantitative measurement of DNA strand-specific differential expression of annotated and non-annotated transcripts. more...

Organism:

Schizosaccharomyces pombe; Schizosaccharomyces pombe 972h-

Type:

Expression profiling by array; Expression profiling by genome tiling array

Platforms:

GPL9671 GPL9672

8 Samples

Download data: CEL

(Submitter supplied) We have performed a genome-wide analysis of common genetic variation controlling differential expression of transcript isoforms in the CEU HapMap population using a comprehensive exon tiling microarray covering 17,897 genes. We detected 324 genes with significant associations between flanking SNPs and transcript levels. Of these, 39% reflected changes in whole gene expression and 55% reflected transcript isoform changes such as splicing variants (exon skipping, alternate splice site usage, intron retention), differential 5’ UTR (initiation of transcription) usage, and differential 3’ UTR (alternative polyadenylation) usage. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5175

171 Samples

Download data: CEL, TXT

(Submitter supplied) The project had 2 goals: 1) To evaluate the transcriptional response of 3 prototypical toxicants (Clofibrate, VPA, and DEHP) on rat lever. 2) To evaluate the impact pooling samples has on data analysis. Keywords = Clofibrate Keywords = Diethylhexyl phthalate Keywords = Phthalic acid bis(2-ethylhexyl ester) Keywords = Sodium Valproate Keywords = Valproic Acid Keywords = VPA Keywords = vehicle Keywords: other

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS1451

Platform:

GPL85

94 Samples

Download data: CEL, CHP, EXP

Analysis of livers of Sprague-Dawley males at various time points up to 168 hours after treatment with clofibrate, diethylhexylphthalate, or valproic acid. Expression profiles from pooled and individual samples compared. Results provide insight into the impact of pooling on experimental analysis.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 agent, 2 protocol, 4 time sets

Platform:

GPL85

Series:

GSE2303

94 Samples

Download data: CEL, CHP, EXP