GEO DataSets

(Submitter supplied) Compatibility between high-density oligonucleotide arrays is significantly affected by probe-level sequence information. With a careful filtering of the probes based on their sequence overlaps, data from different generations of microarrays can be combined more effectively. The dataset of 14 human muscle biopsy samples from patients with inflammatory myopathies that were hybridized on both HG-U95Av2 and HG-U133A human arrays for this purpose. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL8300 GPL96

28 Samples

Download data: CEL

(Submitter supplied) This series represents a set of experiments preformed using RNA isolated from human mammary epithelial cells, human MDA-MB-436 cells and HCC1954 cells. Keywords: parallel sample

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS817 GDS820 GDS823 GDS825

4 related Platforms

22 Samples

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Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from cDNA arrays to that from Affymetrix arrays. The method uses DNA sequence to match probes between platforms.

Organism:

Homo sapiens

Type:

Expression profiling by array, log ratio, 2 cell line sets

Platform:

GPL875

Series:

GSE1299

4 Samples

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Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 cell line, 2 disease state sets

Platform:

GPL97

Series:

GSE1299

6 Samples

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Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 cell line, 2 disease state sets

Platform:

GPL96

Series:

GSE1299

6 Samples

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Expression profiling of breast cancer cell lines HCC 1954 and MDA-MB-436 in reference to mammary epithelial cells. Results used to validate a method of comparing data generated from Affymetrix arrays to that from cDNA arrays. The method uses DNA sequence to match probes between platforms.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 cell line, 2 disease state sets

Platform:

GPL8300

Series:

GSE1299

6 Samples

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(Submitter supplied) Gene expression comparison of Wilms tumor RNA versus Stratagene Universal reference RNA Keywords: repeat sample

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS1791

Platform:

GPL96

4 Samples

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Expression profiling of Wilms' tumor tissue after pre-operative chemotherapy. Stratagene Universal Reference RNA also examined. Results are part of a cross-platform evaluation and compared to data generated from Serial Analysis of Gene Expression.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 other sets

Platform:

GPL96

Series:

GSE1158

4 Samples

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(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

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(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) The growth in popularity of RNA expression microarrays has been accompanied by concerns about the reliability of the data especially when comparing between different platforms. Here we present an evaluation of the reproducibility of microarray results using two platforms, Affymetrix GeneChips and Illumina BeadArrays. The study design is based on a dilution series of two human tissues (blood and placenta), tested in duplicate on each platform. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL570 GPL2725

24 Samples

Download data: CEL

(Submitter supplied) Each total RNA sample is hybridized to two different arrays: Affymetrix U133A (GPL96) and U133B (GPL97). For most of the normal tissue samples there is a renal clear cell carcinoma sample from the same patient. There is no matching tumor sample for normal sample N1. For most of the renal clear cell carcinoma samples there is a corresponding adjacent normal tissue sample from the same patient. There are no matching normal tissue samples for C011 or C032. Keywords = kidney Keywords = renal Keywords = RCC Keywords = carcinoma Keywords = cancer Keywords: parallel sample

Organism:

Homo sapiens

Type:

Expression profiling by array

Datasets:

GDS505 GDS507

Platforms:

GPL97 GPL96

34 Samples

Download data: CEL

Investigation into mechanisms of renal clear cell carcinogenesis (RCC). Comparison of renal clear cell tumor tissue and adjacent normal tissue isolated from the same surgical samples.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 10 individual sets

Platform:

GPL97

Series:

GSE781

17 Samples

Download data: CEL

Investigation into mechanisms of renal clear cell carcinogenesis (RCC). Comparison of renal clear cell tumor tissue and adjacent normal tissue isolated from the same surgical samples.

Organism:

Homo sapiens

Type:

Expression profiling by array, count, 2 disease state, 10 individual sets

Platform:

GPL96

Series:

GSE781

17 Samples

Download data: CEL

(Submitter supplied) We present a novel method of using commercial oligonucleotide expression microarrays for aCGH, enabling DNA copy number measurements and expression profiles to be combined using the same platform. This method yields aCGH data from genomic DNA without complexity reduction at a median resolution of approximately 17,500 base pairs. Due to the well-defined nature of oligonucleotide probes, DNA amplification and deletion can be defined at the level of individual genes and can easily be combined with gene expression data. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by array

Platform:

GPL570

8 Samples

Download data: CEL

(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) 60-mers oligonucleotide probes, in-situ synthesis on 1 Protocol: Sure Print Technology-In situ synthesis

Organism:

Staphylococcus aureus

4 Series

30 Samples

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(Submitter supplied) The aim of the study is to characterize the gene expression of the growing antlers during their process of regeneration and fast growth Keywords: tissue type and state comparison

Organism:

Cervus elaphus; Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

4 Samples

Download data: CEL, EXP